-- dump date 20140619_015142 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1335307000001 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 1335307000002 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 1335307000003 tetrameric interface [polypeptide binding]; other site 1335307000004 NAD binding site [chemical binding]; other site 1335307000005 catalytic residues [active] 1335307000006 substrate binding site [chemical binding]; other site 1335307000007 hypothetical protein; Provisional; Region: PRK07036 1335307000008 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 1335307000009 inhibitor-cofactor binding pocket; inhibition site 1335307000010 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307000011 catalytic residue [active] 1335307000012 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; cl00184 1335307000013 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 1335307000014 Cysteine-rich motif following a subset of SET domains; Region: PostSET; smart00508 1335307000015 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1335307000016 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1335307000017 AMP-binding enzyme; Region: AMP-binding; pfam00501 1335307000018 acyl-activating enzyme (AAE) consensus motif; other site 1335307000019 AMP binding site [chemical binding]; other site 1335307000020 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307000021 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 1335307000022 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 1335307000023 active site 1335307000024 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1335307000025 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 1335307000026 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1335307000027 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307000028 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1335307000029 NAD(P) binding site [chemical binding]; other site 1335307000030 active site 1335307000031 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307000032 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1335307000033 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 1335307000034 DNA binding residues [nucleotide binding] 1335307000035 dimerization interface [polypeptide binding]; other site 1335307000036 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1335307000037 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1335307000038 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1335307000039 active site 1335307000040 non-prolyl cis peptide bond; other site 1335307000041 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1335307000042 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1335307000043 Walker A/P-loop; other site 1335307000044 ATP binding site [chemical binding]; other site 1335307000045 Q-loop/lid; other site 1335307000046 ABC transporter signature motif; other site 1335307000047 Walker B; other site 1335307000048 D-loop; other site 1335307000049 H-loop/switch region; other site 1335307000050 NIL domain; Region: NIL; pfam09383 1335307000051 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 1335307000052 dimer interface [polypeptide binding]; other site 1335307000053 conserved gate region; other site 1335307000054 ABC-ATPase subunit interface; other site 1335307000055 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1335307000056 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 1335307000057 Flavin binding site [chemical binding]; other site 1335307000058 transcriptional regulator NanR; Provisional; Region: PRK03837 1335307000059 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1335307000060 DNA-binding site [nucleotide binding]; DNA binding site 1335307000061 FCD domain; Region: FCD; pfam07729 1335307000062 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1335307000063 Cysteine-rich domain; Region: CCG; pfam02754 1335307000064 Cysteine-rich domain; Region: CCG; pfam02754 1335307000065 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 1335307000066 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1335307000067 4Fe-4S binding domain; Region: Fer4; pfam00037 1335307000068 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 1335307000069 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 1335307000070 glycolate transporter; Provisional; Region: PRK09695 1335307000071 L-lactate permease; Region: Lactate_perm; cl00701 1335307000072 Predicted membrane protein [Function unknown]; Region: COG2259 1335307000073 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 1335307000074 putative substrate translocation pore; other site 1335307000075 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 1335307000076 metabolite-proton symporter; Region: 2A0106; TIGR00883 1335307000077 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 1335307000078 putative substrate translocation pore; other site 1335307000079 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 1335307000080 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1335307000081 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1335307000082 dimer interface [polypeptide binding]; other site 1335307000083 NADP binding site [chemical binding]; other site 1335307000084 catalytic residues [active] 1335307000085 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1335307000086 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1335307000087 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1335307000088 inhibitor site; inhibition site 1335307000089 active site 1335307000090 dimer interface [polypeptide binding]; other site 1335307000091 catalytic residue [active] 1335307000092 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 1335307000093 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1335307000094 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1335307000095 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1335307000096 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1335307000097 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1335307000098 PAS fold; Region: PAS_4; pfam08448 1335307000099 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1335307000100 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307000101 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1335307000102 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1335307000103 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1335307000104 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1335307000105 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 1335307000106 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1335307000107 dimer interface [polypeptide binding]; other site 1335307000108 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1335307000109 active site 1335307000110 Fe binding site [ion binding]; other site 1335307000111 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 1335307000112 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1335307000113 active site 1335307000114 trimer interface [polypeptide binding]; other site 1335307000115 dimer interface [polypeptide binding]; other site 1335307000116 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 1335307000117 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1335307000118 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1335307000119 shikimate binding site; other site 1335307000120 NAD(P) binding site [chemical binding]; other site 1335307000121 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 1335307000122 D-galactonate transporter; Region: 2A0114; TIGR00893 1335307000123 putative substrate translocation pore; other site 1335307000124 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 1335307000125 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 1335307000126 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1335307000127 catalytic residue [active] 1335307000128 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate binding protein; Region: PhnS; TIGR03227 1335307000129 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1335307000130 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT; Region: PhnT; TIGR03258 1335307000131 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307000132 Walker A/P-loop; other site 1335307000133 ATP binding site [chemical binding]; other site 1335307000134 Q-loop/lid; other site 1335307000135 ABC transporter signature motif; other site 1335307000136 Walker B; other site 1335307000137 D-loop; other site 1335307000138 H-loop/switch region; other site 1335307000139 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 1335307000140 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 1335307000141 dimer interface [polypeptide binding]; other site 1335307000142 conserved gate region; other site 1335307000143 putative PBP binding loops; other site 1335307000144 ABC-ATPase subunit interface; other site 1335307000145 2-aminoethylphosphonate ABC transport system, membrane component PhnV; Region: PhnV; TIGR03255 1335307000146 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 1335307000147 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 1335307000148 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 1335307000149 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 1335307000150 NAD(P) binding site [chemical binding]; other site 1335307000151 catalytic residues [active] 1335307000152 phosphonate degradation operons associated HDIG domain protein; Region: Phn-HD; TIGR03276 1335307000153 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1335307000154 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1335307000155 DNA binding residues [nucleotide binding] 1335307000156 dimer interface [polypeptide binding]; other site 1335307000157 copper binding site [ion binding]; other site 1335307000158 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1335307000159 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 1335307000160 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 1335307000161 active site 1335307000162 catalytic tetrad [active] 1335307000163 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 1335307000164 classical (c) SDRs; Region: SDR_c; cd05233 1335307000165 NAD(P) binding site [chemical binding]; other site 1335307000166 active site 1335307000167 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1335307000168 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 1335307000169 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307000170 homodimer interface [polypeptide binding]; other site 1335307000171 catalytic residue [active] 1335307000172 excinuclease ABC subunit B; Provisional; Region: PRK05298 1335307000173 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 1335307000174 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 1335307000175 ATP-binding site [chemical binding]; other site 1335307000176 ATP binding site [chemical binding]; other site 1335307000177 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 1335307000178 nucleotide binding region [chemical binding]; other site 1335307000179 ATP-binding site [chemical binding]; other site 1335307000180 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1335307000181 UvrB/uvrC motif; Region: UVR; pfam02151 1335307000182 Fe2+ transport protein; Region: Iron_transport; pfam10634 1335307000183 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1335307000184 Iron permease FTR1 family; Region: FTR1; cl00475 1335307000185 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1335307000186 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1335307000187 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 1335307000188 Hemin uptake protein hemP; Region: hemP; pfam10636 1335307000189 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 1335307000190 putative hydrophobic ligand binding site [chemical binding]; other site 1335307000191 Pirin-related protein [General function prediction only]; Region: COG1741 1335307000192 Pirin; Region: Pirin; pfam02678 1335307000193 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1335307000194 LysR family transcriptional regulator; Provisional; Region: PRK14997 1335307000195 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307000196 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 1335307000197 putative effector binding pocket; other site 1335307000198 putative dimerization interface [polypeptide binding]; other site 1335307000199 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1335307000200 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1335307000201 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1335307000202 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1335307000203 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 1335307000204 glutamate racemase; Provisional; Region: PRK00865 1335307000205 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1335307000206 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1335307000207 heme binding site [chemical binding]; other site 1335307000208 ferroxidase pore; other site 1335307000209 ferroxidase diiron center [ion binding]; other site 1335307000210 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1335307000211 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1335307000212 hypothetical protein; Provisional; Region: PRK05208 1335307000213 EamA-like transporter family; Region: EamA; pfam00892 1335307000214 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1335307000215 EamA-like transporter family; Region: EamA; pfam00892 1335307000216 acetyl-CoA synthetase; Provisional; Region: PRK00174 1335307000217 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1335307000218 active site 1335307000219 CoA binding site [chemical binding]; other site 1335307000220 acyl-activating enzyme (AAE) consensus motif; other site 1335307000221 AMP binding site [chemical binding]; other site 1335307000222 acetate binding site [chemical binding]; other site 1335307000223 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 1335307000224 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1335307000225 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 1335307000226 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1335307000227 SPFH domain / Band 7 family; Region: Band_7; pfam01145 1335307000228 Integrase core domain; Region: rve; pfam00665 1335307000229 Integrase core domain; Region: rve_3; pfam13683 1335307000230 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 1335307000231 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1335307000232 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 1335307000233 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1335307000234 Integrase core domain; Region: rve_3; pfam13683 1335307000235 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 1335307000236 DNA-binding interface [nucleotide binding]; DNA binding site 1335307000237 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1335307000238 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1335307000239 active site 1335307000240 metal binding site [ion binding]; metal-binding site 1335307000241 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 1335307000242 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1335307000243 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial protein Rv2277c and similar proteins; Region: GDPD_Rv2277c_like; cd08580 1335307000244 putative active site [active] 1335307000245 catalytic site [active] 1335307000246 putative metal binding site [ion binding]; other site 1335307000247 Integrase core domain; Region: rve; pfam00665 1335307000248 Integrase core domain; Region: rve_3; pfam13683 1335307000249 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1335307000250 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1335307000251 Bacterial Ig-like domain; Region: Big_5; pfam13205 1335307000252 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 1335307000253 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 1335307000254 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1335307000255 PYR/PP interface [polypeptide binding]; other site 1335307000256 dimer interface [polypeptide binding]; other site 1335307000257 TPP binding site [chemical binding]; other site 1335307000258 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1335307000259 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 1335307000260 TPP-binding site [chemical binding]; other site 1335307000261 dimer interface [polypeptide binding]; other site 1335307000262 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 1335307000263 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 1335307000264 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 1335307000265 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1335307000266 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 1335307000267 SLBB domain; Region: SLBB; pfam10531 1335307000268 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 1335307000269 Chain length determinant protein; Region: Wzz; pfam02706 1335307000270 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1335307000271 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 1335307000272 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 1335307000273 substrate binding site; other site 1335307000274 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 1335307000275 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 1335307000276 NAD binding site [chemical binding]; other site 1335307000277 homotetramer interface [polypeptide binding]; other site 1335307000278 homodimer interface [polypeptide binding]; other site 1335307000279 substrate binding site [chemical binding]; other site 1335307000280 active site 1335307000281 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 1335307000282 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 1335307000283 inhibitor-cofactor binding pocket; inhibition site 1335307000284 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307000285 catalytic residue [active] 1335307000286 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1335307000287 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1335307000288 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 1335307000289 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 1335307000290 inhibitor-cofactor binding pocket; inhibition site 1335307000291 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307000292 catalytic residue [active] 1335307000293 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 1335307000294 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1335307000295 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1335307000296 active site 1335307000297 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1335307000298 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1335307000299 putative active site [active] 1335307000300 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 1335307000301 trimer interface [polypeptide binding]; other site 1335307000302 active site 1335307000303 substrate binding site [chemical binding]; other site 1335307000304 CoA binding site [chemical binding]; other site 1335307000305 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1335307000306 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1335307000307 active site 1335307000308 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307000309 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307000310 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 1335307000311 putative effector binding pocket; other site 1335307000312 dimerization interface [polypeptide binding]; other site 1335307000313 Pirin-related protein [General function prediction only]; Region: COG1741 1335307000314 Pirin; Region: Pirin; pfam02678 1335307000315 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1335307000316 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 1335307000317 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1335307000318 ligand binding site [chemical binding]; other site 1335307000319 flexible hinge region; other site 1335307000320 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1335307000321 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307000322 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307000323 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1335307000324 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307000325 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1335307000326 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 1335307000327 putative substrate translocation pore; other site 1335307000328 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1335307000329 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307000330 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307000331 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 1335307000332 putative effector binding pocket; other site 1335307000333 dimerization interface [polypeptide binding]; other site 1335307000334 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1335307000335 Isochorismatase family; Region: Isochorismatase; pfam00857 1335307000336 catalytic triad [active] 1335307000337 dimer interface [polypeptide binding]; other site 1335307000338 conserved cis-peptide bond; other site 1335307000339 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 1335307000340 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1335307000341 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 1335307000342 active site 1335307000343 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 1335307000344 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1335307000345 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1335307000346 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1335307000347 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 1335307000348 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 1335307000349 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1335307000350 NAD binding site [chemical binding]; other site 1335307000351 active site 1335307000352 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1335307000353 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 1335307000354 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1335307000355 DNA-binding site [nucleotide binding]; DNA binding site 1335307000356 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 1335307000357 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307000358 homodimer interface [polypeptide binding]; other site 1335307000359 catalytic residue [active] 1335307000360 Putative amidotransferase; Region: DUF4066; pfam13278 1335307000361 conserved cys residue [active] 1335307000362 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1335307000363 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1335307000364 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 1335307000365 hypothetical protein; Provisional; Region: PRK08609 1335307000366 active site 1335307000367 primer binding site [nucleotide binding]; other site 1335307000368 NTP binding site [chemical binding]; other site 1335307000369 metal binding triad [ion binding]; metal-binding site 1335307000370 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 1335307000371 active site 1335307000372 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1335307000373 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1335307000374 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1335307000375 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1335307000376 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1335307000377 CopC domain; Region: CopC; pfam04234 1335307000378 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1335307000379 HAMP domain; Region: HAMP; pfam00672 1335307000380 dimerization interface [polypeptide binding]; other site 1335307000381 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1335307000382 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1335307000383 dimer interface [polypeptide binding]; other site 1335307000384 putative CheW interface [polypeptide binding]; other site 1335307000385 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1335307000386 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1335307000387 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1335307000388 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1335307000389 Protein of unknown function (DUF3138); Region: DUF3138; pfam11336 1335307000390 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 1335307000391 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1335307000392 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 1335307000393 dimer interface [polypeptide binding]; other site 1335307000394 conserved gate region; other site 1335307000395 putative PBP binding loops; other site 1335307000396 ABC-ATPase subunit interface; other site 1335307000397 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1335307000398 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 1335307000399 dimer interface [polypeptide binding]; other site 1335307000400 conserved gate region; other site 1335307000401 putative PBP binding loops; other site 1335307000402 ABC-ATPase subunit interface; other site 1335307000403 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 1335307000404 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307000405 Walker A/P-loop; other site 1335307000406 ATP binding site [chemical binding]; other site 1335307000407 Q-loop/lid; other site 1335307000408 ABC transporter signature motif; other site 1335307000409 Walker B; other site 1335307000410 D-loop; other site 1335307000411 H-loop/switch region; other site 1335307000412 TOBE domain; Region: TOBE_2; pfam08402 1335307000413 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1335307000414 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1335307000415 putative aminotransferase; Validated; Region: PRK07480 1335307000416 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 1335307000417 inhibitor-cofactor binding pocket; inhibition site 1335307000418 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307000419 catalytic residue [active] 1335307000420 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1335307000421 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1335307000422 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1335307000423 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1335307000424 catalytic triad [active] 1335307000425 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1335307000426 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 1335307000427 non-specific DNA binding site [nucleotide binding]; other site 1335307000428 salt bridge; other site 1335307000429 sequence-specific DNA binding site [nucleotide binding]; other site 1335307000430 Cupin domain; Region: Cupin_2; pfam07883 1335307000431 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 1335307000432 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1335307000433 NAD(P) binding site [chemical binding]; other site 1335307000434 catalytic residues [active] 1335307000435 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1335307000436 agmatinase; Region: agmatinase; TIGR01230 1335307000437 oligomer interface [polypeptide binding]; other site 1335307000438 putative active site [active] 1335307000439 Mn binding site [ion binding]; other site 1335307000440 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 1335307000441 oligomerisation interface [polypeptide binding]; other site 1335307000442 mobile loop; other site 1335307000443 roof hairpin; other site 1335307000444 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1335307000445 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 1335307000446 ring oligomerisation interface [polypeptide binding]; other site 1335307000447 ATP/Mg binding site [chemical binding]; other site 1335307000448 stacking interactions; other site 1335307000449 hinge regions; other site 1335307000450 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1335307000451 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1335307000452 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 1335307000453 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 1335307000454 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 1335307000455 active site 1335307000456 dimer interface [polypeptide binding]; other site 1335307000457 effector binding site; other site 1335307000458 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1335307000459 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1335307000460 acyl-activating enzyme (AAE) consensus motif; other site 1335307000461 AMP binding site [chemical binding]; other site 1335307000462 active site 1335307000463 CoA binding site [chemical binding]; other site 1335307000464 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 1335307000465 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 1335307000466 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 1335307000467 active site 1335307000468 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 1335307000469 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 1335307000470 dimer interface [polypeptide binding]; other site 1335307000471 active site 1335307000472 CoA binding pocket [chemical binding]; other site 1335307000473 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1335307000474 acyl-CoA synthetase; Validated; Region: PRK05850 1335307000475 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 1335307000476 acyl-activating enzyme (AAE) consensus motif; other site 1335307000477 active site 1335307000478 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1335307000479 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1335307000480 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1335307000481 active site 1335307000482 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1335307000483 MAPEG family; Region: MAPEG; cl09190 1335307000484 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 1335307000485 putative hydrophobic ligand binding site [chemical binding]; other site 1335307000486 Integrase core domain; Region: rve_3; pfam13683 1335307000487 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1335307000488 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 1335307000489 catalytic residue [active] 1335307000490 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 1335307000491 catalytic residues [active] 1335307000492 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1335307000493 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1335307000494 peroxiredoxin; Region: AhpC; TIGR03137 1335307000495 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 1335307000496 dimer interface [polypeptide binding]; other site 1335307000497 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1335307000498 catalytic triad [active] 1335307000499 peroxidatic and resolving cysteines [active] 1335307000500 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3397 1335307000501 Chitin binding domain; Region: Chitin_bind_3; pfam03067 1335307000502 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 1335307000503 putative FMN binding site [chemical binding]; other site 1335307000504 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1335307000505 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1335307000506 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1335307000507 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1335307000508 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1335307000509 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1335307000510 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1335307000511 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1335307000512 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1335307000513 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 1335307000514 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 1335307000515 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1335307000516 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1335307000517 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1335307000518 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1335307000519 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1335307000520 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1335307000521 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 1335307000522 DNA-binding site [nucleotide binding]; DNA binding site 1335307000523 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 1335307000524 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307000525 homodimer interface [polypeptide binding]; other site 1335307000526 catalytic residue [active] 1335307000527 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1335307000528 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 1335307000529 putative substrate translocation pore; other site 1335307000530 Predicted membrane protein [Function unknown]; Region: COG1289 1335307000531 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1335307000532 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1335307000533 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1335307000534 conserved cys residue [active] 1335307000535 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307000536 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 1335307000537 conserved cys residue [active] 1335307000538 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 1335307000539 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1335307000540 catalytic residue [active] 1335307000541 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1335307000542 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 1335307000543 PYR/PP interface [polypeptide binding]; other site 1335307000544 dimer interface [polypeptide binding]; other site 1335307000545 TPP binding site [chemical binding]; other site 1335307000546 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 1335307000547 TPP-binding site [chemical binding]; other site 1335307000548 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1335307000549 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 1335307000550 tetramer interface [polypeptide binding]; other site 1335307000551 active site 1335307000552 Mg2+/Mn2+ binding site [ion binding]; other site 1335307000553 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 1335307000554 active site 1335307000555 metal-binding site 1335307000556 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 1335307000557 active site 1335307000558 metal-binding site 1335307000559 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 1335307000560 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1335307000561 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1335307000562 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1335307000563 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 1335307000564 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1335307000565 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 1335307000566 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1335307000567 type VI secretion protein, VC_A0107 family; Region: VI_chp_5; TIGR03358 1335307000568 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 1335307000569 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1335307000570 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1335307000571 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 1335307000572 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1335307000573 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 1335307000574 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 1335307000575 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1335307000576 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 1335307000577 Walker A motif; other site 1335307000578 ATP binding site [chemical binding]; other site 1335307000579 Walker B motif; other site 1335307000580 arginine finger; other site 1335307000581 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 1335307000582 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 1335307000583 Walker A motif; other site 1335307000584 ATP binding site [chemical binding]; other site 1335307000585 Walker B motif; other site 1335307000586 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1335307000587 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1335307000588 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1335307000589 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1335307000590 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1335307000591 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1335307000592 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1335307000593 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; cl02212 1335307000594 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1335307000595 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1335307000596 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1335307000597 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1335307000598 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1335307000599 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 1335307000600 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 1335307000601 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 1335307000602 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 1335307000603 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1335307000604 hypothetical protein; Provisional; Region: PRK14693 1335307000605 type IV / VI secretion system protein, DotU family; Region: IV_VI_DotU; TIGR03349 1335307000606 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1335307000607 ligand binding site [chemical binding]; other site 1335307000608 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 1335307000609 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1335307000610 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1335307000611 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1335307000612 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 1335307000613 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 1335307000614 active site 1335307000615 TDP-binding site; other site 1335307000616 acceptor substrate-binding pocket; other site 1335307000617 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1335307000618 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 1335307000619 putative substrate translocation pore; other site 1335307000620 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 1335307000621 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 1335307000622 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 1335307000623 Ligand binding site; other site 1335307000624 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1335307000625 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1335307000626 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1335307000627 HlyD family secretion protein; Region: HlyD_3; pfam13437 1335307000628 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 1335307000629 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1335307000630 substrate binding [chemical binding]; other site 1335307000631 active site 1335307000632 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1335307000633 Glycosyl hydrolase family 68, includes levansucrase, beta-fructofuranosidase and inulosucrase; Region: GH68; cd08997 1335307000634 active site 1335307000635 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1335307000636 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1335307000637 DNA binding site [nucleotide binding] 1335307000638 domain linker motif; other site 1335307000639 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 1335307000640 ligand binding site [chemical binding]; other site 1335307000641 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 1335307000642 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 1335307000643 NAD binding site [chemical binding]; other site 1335307000644 catalytic Zn binding site [ion binding]; other site 1335307000645 structural Zn binding site [ion binding]; other site 1335307000646 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1335307000647 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1335307000648 conserved cys residue [active] 1335307000649 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307000650 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 1335307000651 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 1335307000652 dimer interface [polypeptide binding]; other site 1335307000653 active site 1335307000654 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1335307000655 folate binding site [chemical binding]; other site 1335307000656 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1335307000657 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 1335307000658 active site 1335307000659 dimer interface [polypeptide binding]; other site 1335307000660 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 1335307000661 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1335307000662 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 1335307000663 putative active site [active] 1335307000664 putative FMN binding site [chemical binding]; other site 1335307000665 putative substrate binding site [chemical binding]; other site 1335307000666 putative catalytic residue [active] 1335307000667 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1335307000668 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 1335307000669 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1335307000670 Cysteine-rich domain; Region: CCG; pfam02754 1335307000671 Cysteine-rich domain; Region: CCG; pfam02754 1335307000672 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1335307000673 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1335307000674 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 1335307000675 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1335307000676 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 1335307000677 [2Fe-2S] cluster binding site [ion binding]; other site 1335307000678 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 1335307000679 putative alpha subunit interface [polypeptide binding]; other site 1335307000680 putative active site [active] 1335307000681 putative substrate binding site [chemical binding]; other site 1335307000682 Fe binding site [ion binding]; other site 1335307000683 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1335307000684 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 1335307000685 FAD binding pocket [chemical binding]; other site 1335307000686 FAD binding motif [chemical binding]; other site 1335307000687 phosphate binding motif [ion binding]; other site 1335307000688 beta-alpha-beta structure motif; other site 1335307000689 NAD binding pocket [chemical binding]; other site 1335307000690 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1335307000691 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 1335307000692 catalytic loop [active] 1335307000693 iron binding site [ion binding]; other site 1335307000694 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1335307000695 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1335307000696 Amino acid permease; Region: AA_permease_2; pfam13520 1335307000697 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 1335307000698 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1335307000699 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1335307000700 putative active site [active] 1335307000701 putative substrate binding site [chemical binding]; other site 1335307000702 putative cosubstrate binding site; other site 1335307000703 catalytic site [active] 1335307000704 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1335307000705 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307000706 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 1335307000707 substrate binding pocket [chemical binding]; other site 1335307000708 dimerization interface [polypeptide binding]; other site 1335307000709 choline-sulfatase; Region: chol_sulfatase; TIGR03417 1335307000710 Sulfatase; Region: Sulfatase; cl17466 1335307000711 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 1335307000712 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1335307000713 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1335307000714 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307000715 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307000716 trimer interface [polypeptide binding]; other site 1335307000717 eyelet of channel; other site 1335307000718 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase; Region: M28_AAP; cd03879 1335307000719 Peptidase family M28; Region: Peptidase_M28; pfam04389 1335307000720 active site 1335307000721 metal binding site [ion binding]; metal-binding site 1335307000722 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 1335307000723 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1335307000724 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1335307000725 Zn binding site [ion binding]; other site 1335307000726 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1335307000727 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1335307000728 conserved cys residue [active] 1335307000729 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307000730 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1335307000731 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1335307000732 Uncharacterized conserved protein [Function unknown]; Region: COG3246 1335307000733 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 1335307000734 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1335307000735 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1335307000736 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 1335307000737 active site 1335307000738 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1335307000739 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 1335307000740 short chain dehydrogenase; Provisional; Region: PRK06197 1335307000741 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 1335307000742 putative NAD(P) binding site [chemical binding]; other site 1335307000743 active site 1335307000744 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 1335307000745 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1335307000746 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1335307000747 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1335307000748 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1335307000749 dimerization interface [polypeptide binding]; other site 1335307000750 ligand binding site [chemical binding]; other site 1335307000751 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1335307000752 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 1335307000753 TM-ABC transporter signature motif; other site 1335307000754 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1335307000755 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1335307000756 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 1335307000757 TM-ABC transporter signature motif; other site 1335307000758 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 1335307000759 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1335307000760 Walker A/P-loop; other site 1335307000761 ATP binding site [chemical binding]; other site 1335307000762 Q-loop/lid; other site 1335307000763 ABC transporter signature motif; other site 1335307000764 Walker B; other site 1335307000765 D-loop; other site 1335307000766 H-loop/switch region; other site 1335307000767 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1335307000768 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1335307000769 Walker A/P-loop; other site 1335307000770 ATP binding site [chemical binding]; other site 1335307000771 Q-loop/lid; other site 1335307000772 ABC transporter signature motif; other site 1335307000773 Walker B; other site 1335307000774 D-loop; other site 1335307000775 H-loop/switch region; other site 1335307000776 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1335307000777 Peptidase family M23; Region: Peptidase_M23; pfam01551 1335307000778 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 1335307000779 salicylate biosynthesis isochorismate synthase; Validated; Region: PRK07054 1335307000780 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1335307000781 isochorismate-pyruvate lyase; Reviewed; Region: PRK07075 1335307000782 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1335307000783 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 1335307000784 nucleophilic elbow; other site 1335307000785 catalytic triad; other site 1335307000786 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 1335307000787 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 1335307000788 acyl-activating enzyme (AAE) consensus motif; other site 1335307000789 active site 1335307000790 AMP binding site [chemical binding]; other site 1335307000791 substrate binding site [chemical binding]; other site 1335307000792 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1335307000793 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307000794 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 1335307000795 Condensation domain; Region: Condensation; pfam00668 1335307000796 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1335307000797 Nonribosomal peptide synthase; Region: NRPS; pfam08415 1335307000798 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 1335307000799 acyl-activating enzyme (AAE) consensus motif; other site 1335307000800 AMP binding site [chemical binding]; other site 1335307000801 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1335307000802 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1335307000803 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307000804 Condensation domain; Region: Condensation; pfam00668 1335307000805 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1335307000806 Nonribosomal peptide synthase; Region: NRPS; pfam08415 1335307000807 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 1335307000808 acyl-activating enzyme (AAE) consensus motif; other site 1335307000809 AMP binding site [chemical binding]; other site 1335307000810 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1335307000811 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1335307000812 thiazolinyl imide reductase; Region: thiaz-red; TIGR01761 1335307000813 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1335307000814 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1335307000815 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307000816 Walker A/P-loop; other site 1335307000817 ATP binding site [chemical binding]; other site 1335307000818 Q-loop/lid; other site 1335307000819 ABC transporter signature motif; other site 1335307000820 Walker B; other site 1335307000821 D-loop; other site 1335307000822 H-loop/switch region; other site 1335307000823 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1335307000824 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307000825 Walker A/P-loop; other site 1335307000826 ATP binding site [chemical binding]; other site 1335307000827 Q-loop/lid; other site 1335307000828 ABC transporter signature motif; other site 1335307000829 Walker B; other site 1335307000830 D-loop; other site 1335307000831 H-loop/switch region; other site 1335307000832 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1335307000833 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1335307000834 N-terminal plug; other site 1335307000835 ligand-binding site [chemical binding]; other site 1335307000836 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1335307000837 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 1335307000838 Acetyl-coenzyme A transporter 1; Region: Acatn; pfam13000 1335307000839 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 1335307000840 catalytic loop [active] 1335307000841 iron binding site [ion binding]; other site 1335307000842 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1335307000843 GAF domain; Region: GAF; pfam01590 1335307000844 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 1335307000845 Walker A motif; other site 1335307000846 ATP binding site [chemical binding]; other site 1335307000847 Walker B motif; other site 1335307000848 arginine finger; other site 1335307000849 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1335307000850 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 1335307000851 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 1335307000852 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1335307000853 TIGR02594 family protein; Region: TIGR02594 1335307000854 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 1335307000855 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1335307000856 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307000857 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 1335307000858 dimerization interface [polypeptide binding]; other site 1335307000859 substrate binding pocket [chemical binding]; other site 1335307000860 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 1335307000861 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 1335307000862 NAD(P) binding site [chemical binding]; other site 1335307000863 catalytic residues [active] 1335307000864 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1335307000865 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1335307000866 active site 1335307000867 iron coordination sites [ion binding]; other site 1335307000868 substrate binding pocket [chemical binding]; other site 1335307000869 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1335307000870 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 1335307000871 PYR/PP interface [polypeptide binding]; other site 1335307000872 dimer interface [polypeptide binding]; other site 1335307000873 TPP binding site [chemical binding]; other site 1335307000874 Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as...; Region: TPP_PpyrDC; cd03371 1335307000875 TPP-binding site; other site 1335307000876 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1335307000877 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 1335307000878 tetramer interface [polypeptide binding]; other site 1335307000879 active site 1335307000880 Mg2+/Mn2+ binding site [ion binding]; other site 1335307000881 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1335307000882 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1335307000883 short chain dehydrogenase; Validated; Region: PRK05855 1335307000884 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1335307000885 classical (c) SDRs; Region: SDR_c; cd05233 1335307000886 NAD(P) binding site [chemical binding]; other site 1335307000887 active site 1335307000888 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 1335307000889 active site 1335307000890 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1335307000891 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 1335307000892 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 1335307000893 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 1335307000894 active site 1335307000895 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 1335307000896 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1335307000897 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1335307000898 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307000899 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1335307000900 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1335307000901 active site 1335307000902 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1335307000903 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_1; cd05974 1335307000904 active site 1335307000905 acyl-activating enzyme (AAE) consensus motif; other site 1335307000906 putative CoA binding site [chemical binding]; other site 1335307000907 AMP binding site [chemical binding]; other site 1335307000908 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1335307000909 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1335307000910 tetrameric interface [polypeptide binding]; other site 1335307000911 NAD binding site [chemical binding]; other site 1335307000912 catalytic residues [active] 1335307000913 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1335307000914 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1335307000915 enoyl-CoA hydratase; Provisional; Region: PRK09076 1335307000916 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 1335307000917 substrate binding site [chemical binding]; other site 1335307000918 oxyanion hole (OAH) forming residues; other site 1335307000919 trimer interface [polypeptide binding]; other site 1335307000920 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1335307000921 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 1335307000922 substrate binding site [chemical binding]; other site 1335307000923 oxyanion hole (OAH) forming residues; other site 1335307000924 trimer interface [polypeptide binding]; other site 1335307000925 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1335307000926 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1335307000927 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1335307000928 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1335307000929 Walker A/P-loop; other site 1335307000930 ATP binding site [chemical binding]; other site 1335307000931 Q-loop/lid; other site 1335307000932 ABC transporter signature motif; other site 1335307000933 Walker B; other site 1335307000934 D-loop; other site 1335307000935 H-loop/switch region; other site 1335307000936 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1335307000937 FtsX-like permease family; Region: FtsX; pfam02687 1335307000938 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1335307000939 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1335307000940 HlyD family secretion protein; Region: HlyD_3; pfam13437 1335307000941 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 1335307000942 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 1335307000943 active site 1335307000944 dimer interface [polypeptide binding]; other site 1335307000945 non-prolyl cis peptide bond; other site 1335307000946 insertion regions; other site 1335307000947 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 1335307000948 B1 nucleotide binding pocket [chemical binding]; other site 1335307000949 B2 nucleotide binding pocket [chemical binding]; other site 1335307000950 CAS motifs; other site 1335307000951 active site 1335307000952 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1335307000953 glutaminase; Provisional; Region: PRK00971 1335307000954 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 1335307000955 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 1335307000956 active site 1335307000957 phosphorylation site [posttranslational modification] 1335307000958 intermolecular recognition site; other site 1335307000959 dimerization interface [polypeptide binding]; other site 1335307000960 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 1335307000961 DNA binding site [nucleotide binding] 1335307000962 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 1335307000963 dimer interface [polypeptide binding]; other site 1335307000964 phosphorylation site [posttranslational modification] 1335307000965 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 1335307000966 ATP binding site [chemical binding]; other site 1335307000967 Mg2+ binding site [ion binding]; other site 1335307000968 G-X-G motif; other site 1335307000969 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1335307000970 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 1335307000971 active site 1335307000972 nucleophile elbow; other site 1335307000973 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1335307000974 Surface antigen; Region: Bac_surface_Ag; pfam01103 1335307000975 rod shape-determining protein MreB; Provisional; Region: PRK13930 1335307000976 MreB and similar proteins; Region: MreB_like; cd10225 1335307000977 nucleotide binding site [chemical binding]; other site 1335307000978 Mg binding site [ion binding]; other site 1335307000979 putative protofilament interaction site [polypeptide binding]; other site 1335307000980 RodZ interaction site [polypeptide binding]; other site 1335307000981 Cytochrome c; Region: Cytochrom_C; cl11414 1335307000982 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1335307000983 HD domain; Region: HD_3; pfam13023 1335307000984 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 1335307000985 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 1335307000986 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 1335307000987 substrate binding pocket [chemical binding]; other site 1335307000988 aspartate-rich region 1; other site 1335307000989 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_8; cd07246 1335307000990 putative dimer interface [polypeptide binding]; other site 1335307000991 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1335307000992 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1335307000993 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 1335307000994 C-terminal domain interface [polypeptide binding]; other site 1335307000995 GSH binding site (G-site) [chemical binding]; other site 1335307000996 dimer interface [polypeptide binding]; other site 1335307000997 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1335307000998 N-terminal domain interface [polypeptide binding]; other site 1335307000999 dimer interface [polypeptide binding]; other site 1335307001000 substrate binding pocket (H-site) [chemical binding]; other site 1335307001001 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 1335307001002 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 1335307001003 dimer interface [polypeptide binding]; other site 1335307001004 phosphorylation site [posttranslational modification] 1335307001005 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 1335307001006 ATP binding site [chemical binding]; other site 1335307001007 Mg2+ binding site [ion binding]; other site 1335307001008 G-X-G motif; other site 1335307001009 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 1335307001010 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 1335307001011 active site 1335307001012 phosphorylation site [posttranslational modification] 1335307001013 intermolecular recognition site; other site 1335307001014 dimerization interface [polypeptide binding]; other site 1335307001015 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 1335307001016 DNA binding site [nucleotide binding] 1335307001017 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1335307001018 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1335307001019 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 1335307001020 putative active site [active] 1335307001021 Uncharacterized small protein (DUF2158); Region: DUF2158; pfam09926 1335307001022 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 1335307001023 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 1335307001024 active site residue [active] 1335307001025 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 1335307001026 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1335307001027 conserved cys residue [active] 1335307001028 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307001029 hypothetical protein; Provisional; Region: PRK07907 1335307001030 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 1335307001031 metal binding site [ion binding]; metal-binding site 1335307001032 putative dimer interface [polypeptide binding]; other site 1335307001033 TfoX N-terminal domain; Region: TfoX_N; pfam04993 1335307001034 NnrU protein; Region: NnrU; pfam07298 1335307001035 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 1335307001036 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 1335307001037 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 1335307001038 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 1335307001039 VirK protein; Region: VirK; pfam06903 1335307001040 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 1335307001041 HTH-like domain; Region: HTH_21; pfam13276 1335307001042 Integrase core domain; Region: rve; pfam00665 1335307001043 Integrase core domain; Region: rve_3; pfam13683 1335307001044 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1335307001045 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 1335307001046 active site 1335307001047 intermolecular recognition site; other site 1335307001048 dimerization interface [polypeptide binding]; other site 1335307001049 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 1335307001050 DNA binding site [nucleotide binding] 1335307001051 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 1335307001052 Response regulator receiver domain; Region: Response_reg; pfam00072 1335307001053 active site 1335307001054 phosphorylation site [posttranslational modification] 1335307001055 intermolecular recognition site; other site 1335307001056 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1335307001057 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; cl00184 1335307001058 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1335307001059 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 1335307001060 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 1335307001061 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 1335307001062 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 1335307001063 putative substrate translocation pore; other site 1335307001064 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 1335307001065 Trehalase; Region: Trehalase; cl17346 1335307001066 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 1335307001067 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 1335307001068 Subunit I/III interface [polypeptide binding]; other site 1335307001069 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1335307001070 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1335307001071 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 1335307001072 DNA binding residues [nucleotide binding] 1335307001073 dimerization interface [polypeptide binding]; other site 1335307001074 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1335307001075 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 1335307001076 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 1335307001077 active site 1335307001078 dimer interface [polypeptide binding]; other site 1335307001079 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 1335307001080 Ligand Binding Site [chemical binding]; other site 1335307001081 Molecular Tunnel; other site 1335307001082 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 1335307001083 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 1335307001084 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1335307001085 DNA binding site [nucleotide binding] 1335307001086 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1335307001087 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1335307001088 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1335307001089 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1335307001090 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1335307001091 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1335307001092 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 1335307001093 catalytic loop [active] 1335307001094 iron binding site [ion binding]; other site 1335307001095 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1335307001096 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1335307001097 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1335307001098 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307001099 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307001100 SnoaL-like domain; Region: SnoaL_2; pfam12680 1335307001101 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 1335307001102 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1335307001103 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 1335307001104 Flavin binding site [chemical binding]; other site 1335307001105 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1335307001106 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1335307001107 active site 1335307001108 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1335307001109 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1335307001110 active site 1335307001111 non-prolyl cis peptide bond; other site 1335307001112 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 1335307001113 dimerization interface [polypeptide binding]; other site 1335307001114 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 1335307001115 dimer interface [polypeptide binding]; other site 1335307001116 phosphorylation site [posttranslational modification] 1335307001117 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 1335307001118 ATP binding site [chemical binding]; other site 1335307001119 Mg2+ binding site [ion binding]; other site 1335307001120 G-X-G motif; other site 1335307001121 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1335307001122 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 1335307001123 active site 1335307001124 phosphorylation site [posttranslational modification] 1335307001125 intermolecular recognition site; other site 1335307001126 dimerization interface [polypeptide binding]; other site 1335307001127 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 1335307001128 DNA binding site [nucleotide binding] 1335307001129 MltA-interacting protein MipA; Region: MipA; cl01504 1335307001130 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1335307001131 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307001132 NAD(P) binding site [chemical binding]; other site 1335307001133 active site 1335307001134 MarR family; Region: MarR_2; cl17246 1335307001135 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1335307001136 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1335307001137 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 1335307001138 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1335307001139 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 1335307001140 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 1335307001141 NAD binding site [chemical binding]; other site 1335307001142 catalytic residues [active] 1335307001143 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 1335307001144 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1335307001145 putative active site [active] 1335307001146 putative metal binding site [ion binding]; other site 1335307001147 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 1335307001148 putative substrate binding pocket [chemical binding]; other site 1335307001149 trimer interface [polypeptide binding]; other site 1335307001150 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1335307001151 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1335307001152 Helix-turn-helix domain; Region: HTH_18; pfam12833 1335307001153 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307001154 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1335307001155 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1335307001156 NAD(P) binding site [chemical binding]; other site 1335307001157 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307001158 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307001159 trimer interface [polypeptide binding]; other site 1335307001160 eyelet of channel; other site 1335307001161 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1335307001162 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1335307001163 Walker A/P-loop; other site 1335307001164 ATP binding site [chemical binding]; other site 1335307001165 Q-loop/lid; other site 1335307001166 ABC transporter signature motif; other site 1335307001167 Walker B; other site 1335307001168 D-loop; other site 1335307001169 H-loop/switch region; other site 1335307001170 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1335307001171 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 1335307001172 dimer interface [polypeptide binding]; other site 1335307001173 conserved gate region; other site 1335307001174 ABC-ATPase subunit interface; other site 1335307001175 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 1335307001176 dimer interface [polypeptide binding]; other site 1335307001177 conserved gate region; other site 1335307001178 putative PBP binding loops; other site 1335307001179 ABC-ATPase subunit interface; other site 1335307001180 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1335307001181 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 1335307001182 active site 1335307001183 phosphorylation site [posttranslational modification] 1335307001184 intermolecular recognition site; other site 1335307001185 dimerization interface [polypeptide binding]; other site 1335307001186 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 1335307001187 DNA binding site [nucleotide binding] 1335307001188 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1335307001189 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 1335307001190 dimer interface [polypeptide binding]; other site 1335307001191 phosphorylation site [posttranslational modification] 1335307001192 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 1335307001193 ATP binding site [chemical binding]; other site 1335307001194 Mg2+ binding site [ion binding]; other site 1335307001195 G-X-G motif; other site 1335307001196 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1335307001197 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1335307001198 MOSC domain; Region: MOSC; pfam03473 1335307001199 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307001200 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307001201 trimer interface [polypeptide binding]; other site 1335307001202 eyelet of channel; other site 1335307001203 Transposase domain (DUF772); Region: DUF772; pfam05598 1335307001204 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1335307001205 enoyl-CoA hydratase; Validated; Region: PRK08139 1335307001206 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 1335307001207 substrate binding site [chemical binding]; other site 1335307001208 oxyanion hole (OAH) forming residues; other site 1335307001209 trimer interface [polypeptide binding]; other site 1335307001210 alanine racemase; Reviewed; Region: PRK13340 1335307001211 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1335307001212 active site 1335307001213 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1335307001214 substrate binding site [chemical binding]; other site 1335307001215 catalytic residues [active] 1335307001216 dimer interface [polypeptide binding]; other site 1335307001217 Domain of unknown function (DUF427); Region: DUF427; pfam04248 1335307001218 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 1335307001219 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1335307001220 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 1335307001221 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 1335307001222 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 1335307001223 Esterase/lipase [General function prediction only]; Region: COG1647 1335307001224 MASE1; Region: MASE1; pfam05231 1335307001225 PAS fold; Region: PAS_3; pfam08447 1335307001226 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1335307001227 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1335307001228 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1335307001229 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1335307001230 potential catalytic triad [active] 1335307001231 conserved cys residue [active] 1335307001232 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1335307001233 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 1335307001234 active site 1335307001235 FMN binding site [chemical binding]; other site 1335307001236 substrate binding site [chemical binding]; other site 1335307001237 homotetramer interface [polypeptide binding]; other site 1335307001238 catalytic residue [active] 1335307001239 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 1335307001240 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1335307001241 NAD binding site [chemical binding]; other site 1335307001242 homotetramer interface [polypeptide binding]; other site 1335307001243 homodimer interface [polypeptide binding]; other site 1335307001244 substrate binding site [chemical binding]; other site 1335307001245 active site 1335307001246 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1335307001247 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1335307001248 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1335307001249 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307001250 NAD(P) binding site [chemical binding]; other site 1335307001251 active site 1335307001252 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 1335307001253 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1335307001254 DNA-binding site [nucleotide binding]; DNA binding site 1335307001255 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 1335307001256 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307001257 homodimer interface [polypeptide binding]; other site 1335307001258 catalytic residue [active] 1335307001259 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 1335307001260 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 1335307001261 ATP binding site [chemical binding]; other site 1335307001262 Mg2+ binding site [ion binding]; other site 1335307001263 G-X-G motif; other site 1335307001264 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1335307001265 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 1335307001266 ligand binding site [chemical binding]; other site 1335307001267 flexible hinge region; other site 1335307001268 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1335307001269 acyl-CoA synthetase; Validated; Region: PRK08162 1335307001270 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 1335307001271 acyl-activating enzyme (AAE) consensus motif; other site 1335307001272 putative active site [active] 1335307001273 AMP binding site [chemical binding]; other site 1335307001274 putative CoA binding site [chemical binding]; other site 1335307001275 Cache domain; Region: Cache_1; pfam02743 1335307001276 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1335307001277 dimer interface [polypeptide binding]; other site 1335307001278 putative CheW interface [polypeptide binding]; other site 1335307001279 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 1335307001280 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 1335307001281 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1335307001282 DXD motif; other site 1335307001283 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1335307001284 HlyD family secretion protein; Region: HlyD_3; pfam13437 1335307001285 HlyD family secretion protein; Region: HlyD_3; pfam13437 1335307001286 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1335307001287 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307001288 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307001289 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 1335307001290 dimerization interface [polypeptide binding]; other site 1335307001291 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1335307001292 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 1335307001293 inhibitor-cofactor binding pocket; inhibition site 1335307001294 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307001295 catalytic residue [active] 1335307001296 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1335307001297 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1335307001298 tetrameric interface [polypeptide binding]; other site 1335307001299 NAD binding site [chemical binding]; other site 1335307001300 catalytic residues [active] 1335307001301 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1335307001302 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1335307001303 Bacterial transcriptional regulator; Region: IclR; pfam01614 1335307001304 N-formylglutamate amidohydrolase; Region: FGase; cl01522 1335307001305 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307001306 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307001307 trimer interface [polypeptide binding]; other site 1335307001308 eyelet of channel; other site 1335307001309 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1335307001310 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1335307001311 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 1335307001312 active site 2 [active] 1335307001313 active site 1 [active] 1335307001314 enoyl-CoA hydratase; Provisional; Region: PRK06688 1335307001315 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 1335307001316 substrate binding site [chemical binding]; other site 1335307001317 oxyanion hole (OAH) forming residues; other site 1335307001318 trimer interface [polypeptide binding]; other site 1335307001319 DUF35 OB-fold domain; Region: DUF35; pfam01796 1335307001320 thiolase; Provisional; Region: PRK06158 1335307001321 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 1335307001322 active site 1335307001323 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1335307001324 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 1335307001325 acyl-activating enzyme (AAE) consensus motif; other site 1335307001326 AMP binding site [chemical binding]; other site 1335307001327 active site 1335307001328 CoA binding site [chemical binding]; other site 1335307001329 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1335307001330 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1335307001331 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1335307001332 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1335307001333 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 1335307001334 catalytic loop [active] 1335307001335 iron binding site [ion binding]; other site 1335307001336 The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons using oxygen as the oxidant. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S]...; Region: O2ase_reductase_like; cd06187 1335307001337 FAD binding pocket [chemical binding]; other site 1335307001338 FAD binding motif [chemical binding]; other site 1335307001339 phosphate binding motif [ion binding]; other site 1335307001340 beta-alpha-beta structure motif; other site 1335307001341 NAD binding pocket [chemical binding]; other site 1335307001342 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 1335307001343 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 1335307001344 dimer interface [polypeptide binding]; other site 1335307001345 PYR/PP interface [polypeptide binding]; other site 1335307001346 TPP binding site [chemical binding]; other site 1335307001347 substrate binding site [chemical binding]; other site 1335307001348 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 1335307001349 TPP-binding site [chemical binding]; other site 1335307001350 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1335307001351 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1335307001352 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1335307001353 dimerization interface [polypeptide binding]; other site 1335307001354 ligand binding site [chemical binding]; other site 1335307001355 YCII-related domain; Region: YCII; cl00999 1335307001356 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1335307001357 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 1335307001358 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307001359 homodimer interface [polypeptide binding]; other site 1335307001360 catalytic residue [active] 1335307001361 short chain dehydrogenase; Provisional; Region: PRK08339 1335307001362 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1335307001363 putative NAD(P) binding site [chemical binding]; other site 1335307001364 putative active site [active] 1335307001365 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1335307001366 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 1335307001367 active site 1335307001368 nucleophile elbow; other site 1335307001369 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1335307001370 Surface antigen; Region: Bac_surface_Ag; pfam01103 1335307001371 Transposase; Region: HTH_Tnp_1; cl17663 1335307001372 Glycosyl hydrolases related to GH101 family; Region: GHL; pfam11308 1335307001373 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307001374 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307001375 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 1335307001376 dimerization interface [polypeptide binding]; other site 1335307001377 Predicted esterase [General function prediction only]; Region: COG0400 1335307001378 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 1335307001379 metabolite-proton symporter; Region: 2A0106; TIGR00883 1335307001380 putative substrate translocation pore; other site 1335307001381 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1335307001382 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307001383 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 1335307001384 dimerization interface [polypeptide binding]; other site 1335307001385 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1335307001386 hypothetical protein; Provisional; Region: PRK07079 1335307001387 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 1335307001388 metal binding site [ion binding]; metal-binding site 1335307001389 putative dimer interface [polypeptide binding]; other site 1335307001390 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 1335307001391 putative substrate translocation pore; other site 1335307001392 D-galactonate transporter; Region: 2A0114; TIGR00893 1335307001393 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1335307001394 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1335307001395 Bacterial transcriptional regulator; Region: IclR; pfam01614 1335307001396 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1335307001397 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1335307001398 Walker A/P-loop; other site 1335307001399 ATP binding site [chemical binding]; other site 1335307001400 Q-loop/lid; other site 1335307001401 ABC transporter signature motif; other site 1335307001402 Walker B; other site 1335307001403 D-loop; other site 1335307001404 H-loop/switch region; other site 1335307001405 TOBE domain; Region: TOBE_2; pfam08402 1335307001406 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1335307001407 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1335307001408 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 1335307001409 dimer interface [polypeptide binding]; other site 1335307001410 conserved gate region; other site 1335307001411 putative PBP binding loops; other site 1335307001412 ABC-ATPase subunit interface; other site 1335307001413 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1335307001414 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 1335307001415 dimer interface [polypeptide binding]; other site 1335307001416 conserved gate region; other site 1335307001417 putative PBP binding loops; other site 1335307001418 ABC-ATPase subunit interface; other site 1335307001419 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1335307001420 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 1335307001421 active site pocket [active] 1335307001422 Domain of unknown function (DUF718); Region: DUF718; pfam05336 1335307001423 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1335307001424 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; cl17802 1335307001425 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 1335307001426 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1335307001427 active site 1335307001428 catalytic tetrad [active] 1335307001429 Amidohydrolase; Region: Amidohydro_2; pfam04909 1335307001430 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1335307001431 active site 1335307001432 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1335307001433 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 1335307001434 NAD binding site [chemical binding]; other site 1335307001435 homotetramer interface [polypeptide binding]; other site 1335307001436 homodimer interface [polypeptide binding]; other site 1335307001437 active site 1335307001438 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 1335307001439 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1335307001440 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307001441 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307001442 trimer interface [polypeptide binding]; other site 1335307001443 eyelet of channel; other site 1335307001444 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1335307001445 Secretory lipase; Region: LIP; pfam03583 1335307001446 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1335307001447 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307001448 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307001449 trimer interface [polypeptide binding]; other site 1335307001450 eyelet of channel; other site 1335307001451 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1335307001452 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1335307001453 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1335307001454 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 1335307001455 DNA binding residues [nucleotide binding] 1335307001456 dimerization interface [polypeptide binding]; other site 1335307001457 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1335307001458 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 1335307001459 homodimer interface [polypeptide binding]; other site 1335307001460 homotetramer interface [polypeptide binding]; other site 1335307001461 active site pocket [active] 1335307001462 cleavage site 1335307001463 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 1335307001464 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1335307001465 transcriptional regulator; Provisional; Region: PRK10632 1335307001466 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307001467 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 1335307001468 putative effector binding pocket; other site 1335307001469 dimerization interface [polypeptide binding]; other site 1335307001470 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 1335307001471 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307001472 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307001473 trimer interface [polypeptide binding]; other site 1335307001474 eyelet of channel; other site 1335307001475 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_14; cd08355 1335307001476 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1335307001477 cytosine permease; Provisional; Region: codB; PRK11017 1335307001478 Na binding site [ion binding]; other site 1335307001479 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 1335307001480 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1335307001481 cytosine deaminase; Provisional; Region: PRK09230 1335307001482 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 1335307001483 active site 1335307001484 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 1335307001485 putative substrate translocation pore; other site 1335307001486 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1335307001487 short chain dehydrogenase; Provisional; Region: PRK12829 1335307001488 classical (c) SDRs; Region: SDR_c; cd05233 1335307001489 NAD(P) binding site [chemical binding]; other site 1335307001490 active site 1335307001491 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1335307001492 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 1335307001493 FCD domain; Region: FCD; pfam07729 1335307001494 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 1335307001495 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1335307001496 putative ion selectivity filter; other site 1335307001497 putative pore gating glutamate residue; other site 1335307001498 H-type lectin domain; Region: H_lectin; pfam09458 1335307001499 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 1335307001500 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 1335307001501 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1335307001502 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1335307001503 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1335307001504 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1335307001505 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 1335307001506 active site 1335307001507 phosphorylation site [posttranslational modification] 1335307001508 intermolecular recognition site; other site 1335307001509 dimerization interface [polypeptide binding]; other site 1335307001510 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 1335307001511 DNA binding residues [nucleotide binding] 1335307001512 dimerization interface [polypeptide binding]; other site 1335307001513 MarR family; Region: MarR_2; cl17246 1335307001514 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1335307001515 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 1335307001516 dimerization interface [polypeptide binding]; other site 1335307001517 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 1335307001518 TM-ABC transporter signature motif; other site 1335307001519 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1335307001520 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 1335307001521 Uncharacterized conserved protein [Function unknown]; Region: COG5649 1335307001522 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 1335307001523 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 1335307001524 substrate binding site [chemical binding]; other site 1335307001525 oxyanion hole (OAH) forming residues; other site 1335307001526 trimer interface [polypeptide binding]; other site 1335307001527 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1335307001528 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1335307001529 NAD(P) binding site [chemical binding]; other site 1335307001530 catalytic residues [active] 1335307001531 feruloyl-CoA synthase; Reviewed; Region: PRK08180 1335307001532 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 1335307001533 acyl-activating enzyme (AAE) consensus motif; other site 1335307001534 putative active site [active] 1335307001535 putative AMP binding site [chemical binding]; other site 1335307001536 putative CoA binding site [chemical binding]; other site 1335307001537 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 1335307001538 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 1335307001539 putative substrate translocation pore; other site 1335307001540 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307001541 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307001542 trimer interface [polypeptide binding]; other site 1335307001543 eyelet of channel; other site 1335307001544 Tannase and feruloyl esterase; Region: Tannase; pfam07519 1335307001545 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1335307001546 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1335307001547 Bacterial transcriptional regulator; Region: IclR; pfam01614 1335307001548 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1335307001549 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1335307001550 ligand binding site [chemical binding]; other site 1335307001551 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1335307001552 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1335307001553 Walker A/P-loop; other site 1335307001554 ATP binding site [chemical binding]; other site 1335307001555 Q-loop/lid; other site 1335307001556 ABC transporter signature motif; other site 1335307001557 Walker B; other site 1335307001558 D-loop; other site 1335307001559 H-loop/switch region; other site 1335307001560 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1335307001561 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 1335307001562 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1335307001563 TM-ABC transporter signature motif; other site 1335307001564 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1335307001565 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1335307001566 Amidohydrolase; Region: Amidohydro_2; pfam04909 1335307001567 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1335307001568 active site 1335307001569 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1335307001570 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 1335307001571 NAD binding site [chemical binding]; other site 1335307001572 homotetramer interface [polypeptide binding]; other site 1335307001573 homodimer interface [polypeptide binding]; other site 1335307001574 active site 1335307001575 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 1335307001576 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1335307001577 short chain dehydrogenase; Provisional; Region: PRK08628 1335307001578 classical (c) SDRs; Region: SDR_c; cd05233 1335307001579 NAD(P) binding site [chemical binding]; other site 1335307001580 active site 1335307001581 Domain of unknown function (DUF718); Region: DUF718; cl01281 1335307001582 Haemagglutinin; Region: HIM; pfam05662 1335307001583 YadA-like C-terminal region; Region: YadA; pfam03895 1335307001584 H-NS histone family; Region: Histone_HNS; pfam00816 1335307001585 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1335307001586 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1335307001587 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1335307001588 Bacterial transcriptional regulator; Region: IclR; pfam01614 1335307001589 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 1335307001590 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1335307001591 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1335307001592 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 1335307001593 CoenzymeA binding site [chemical binding]; other site 1335307001594 subunit interaction site [polypeptide binding]; other site 1335307001595 PHB binding site; other site 1335307001596 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1335307001597 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1335307001598 dimerization interface [polypeptide binding]; other site 1335307001599 ligand binding site [chemical binding]; other site 1335307001600 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1335307001601 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1335307001602 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1335307001603 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1335307001604 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1335307001605 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1335307001606 metal binding site [ion binding]; metal-binding site 1335307001607 active site 1335307001608 I-site; other site 1335307001609 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 1335307001610 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1335307001611 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1335307001612 AsnC family; Region: AsnC_trans_reg; pfam01037 1335307001613 aromatic amino acid transporter; Provisional; Region: PRK10238 1335307001614 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1335307001615 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 1335307001616 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307001617 homodimer interface [polypeptide binding]; other site 1335307001618 catalytic residue [active] 1335307001619 Protein of unknown function, DUF488; Region: DUF488; cl01246 1335307001620 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1335307001621 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1335307001622 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1335307001623 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 1335307001624 PAS fold; Region: PAS; pfam00989 1335307001625 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 1335307001626 putative active site [active] 1335307001627 heme pocket [chemical binding]; other site 1335307001628 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 1335307001629 ATP binding site [chemical binding]; other site 1335307001630 G-X-G motif; other site 1335307001631 Response regulator receiver domain; Region: Response_reg; pfam00072 1335307001632 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 1335307001633 active site 1335307001634 phosphorylation site [posttranslational modification] 1335307001635 intermolecular recognition site; other site 1335307001636 dimerization interface [polypeptide binding]; other site 1335307001637 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 1335307001638 Transglycosylase; Region: Transgly; pfam00912 1335307001639 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1335307001640 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1335307001641 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1335307001642 MG2 domain; Region: A2M_N; pfam01835 1335307001643 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1335307001644 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 1335307001645 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 1335307001646 putative active site pocket [active] 1335307001647 dimerization interface [polypeptide binding]; other site 1335307001648 putative catalytic residue [active] 1335307001649 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1335307001650 active site 1335307001651 HIGH motif; other site 1335307001652 nucleotide binding site [chemical binding]; other site 1335307001653 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1335307001654 active site 1335307001655 KMSKS motif; other site 1335307001656 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1335307001657 tRNA binding surface [nucleotide binding]; other site 1335307001658 anticodon binding site; other site 1335307001659 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 1335307001660 S-adenosylmethionine binding site [chemical binding]; other site 1335307001661 P-aminobenzoate N-oxygenase AurF; Region: AurF; pfam11583 1335307001662 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1335307001663 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1335307001664 substrate binding pocket [chemical binding]; other site 1335307001665 active site 1335307001666 iron coordination sites [ion binding]; other site 1335307001667 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 1335307001668 S-adenosylmethionine binding site [chemical binding]; other site 1335307001669 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1335307001670 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 1335307001671 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1335307001672 catalytic residue [active] 1335307001673 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 1335307001674 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1335307001675 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 1335307001676 putative monooxygenase; Reviewed; Region: PRK07045 1335307001677 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1335307001678 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 1335307001679 sequence-specific DNA binding site [nucleotide binding]; other site 1335307001680 salt bridge; other site 1335307001681 Cupin domain; Region: Cupin_2; pfam07883 1335307001682 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 1335307001683 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 1335307001684 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1335307001685 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 1335307001686 active site 1335307001687 phosphorylation site [posttranslational modification] 1335307001688 intermolecular recognition site; other site 1335307001689 dimerization interface [polypeptide binding]; other site 1335307001690 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 1335307001691 DNA binding residues [nucleotide binding] 1335307001692 dimerization interface [polypeptide binding]; other site 1335307001693 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 1335307001694 Ligand Binding Site [chemical binding]; other site 1335307001695 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 1335307001696 Ligand Binding Site [chemical binding]; other site 1335307001697 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 1335307001698 Ligand Binding Site [chemical binding]; other site 1335307001699 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 1335307001700 Ligand Binding Site [chemical binding]; other site 1335307001701 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 1335307001702 Ligand Binding Site [chemical binding]; other site 1335307001703 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 1335307001704 Ligand Binding Site [chemical binding]; other site 1335307001705 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 1335307001706 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1335307001707 catalytic Zn binding site [ion binding]; other site 1335307001708 structural Zn binding site [ion binding]; other site 1335307001709 NAD(P) binding site [chemical binding]; other site 1335307001710 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1335307001711 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 1335307001712 active site residue [active] 1335307001713 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307001714 NAD(P) binding site [chemical binding]; other site 1335307001715 active site 1335307001716 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1335307001717 Spore germination protein; Region: Spore_permease; cl17796 1335307001718 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 1335307001719 sequence-specific DNA binding site [nucleotide binding]; other site 1335307001720 salt bridge; other site 1335307001721 H-NS histone family; Region: Histone_HNS; pfam00816 1335307001722 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1335307001723 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 1335307001724 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1335307001725 Flavin binding site [chemical binding]; other site 1335307001726 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1335307001727 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1335307001728 Protein of unknown function (DUF3088); Region: DUF3088; pfam11287 1335307001729 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1335307001730 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1335307001731 active site 1335307001732 non-prolyl cis peptide bond; other site 1335307001733 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 1335307001734 active site 1335307001735 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1335307001736 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 1335307001737 substrate binding site [chemical binding]; other site 1335307001738 dimer interface [polypeptide binding]; other site 1335307001739 ATP binding site [chemical binding]; other site 1335307001740 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 1335307001741 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 1335307001742 DEAD_2; Region: DEAD_2; pfam06733 1335307001743 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1335307001744 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1335307001745 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 1335307001746 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1335307001747 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1335307001748 metal binding site [ion binding]; metal-binding site 1335307001749 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1335307001750 flagellar capping protein; Reviewed; Region: fliD; PRK08032 1335307001751 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1335307001752 transcriptional regulator; Provisional; Region: PRK10632 1335307001753 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307001754 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 1335307001755 putative effector binding pocket; other site 1335307001756 dimerization interface [polypeptide binding]; other site 1335307001757 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 1335307001758 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 1335307001759 catalytic residues [active] 1335307001760 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 1335307001761 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1335307001762 active site 1335307001763 catalytic tetrad [active] 1335307001764 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1335307001765 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1335307001766 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 1335307001767 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 1335307001768 classical (c) SDRs; Region: SDR_c; cd05233 1335307001769 NAD(P) binding site [chemical binding]; other site 1335307001770 active site 1335307001771 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1335307001772 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 1335307001773 DNA binding residues [nucleotide binding] 1335307001774 dimerization interface [polypeptide binding]; other site 1335307001775 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1335307001776 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1335307001777 NAD(P) binding site [chemical binding]; other site 1335307001778 catalytic residues [active] 1335307001779 hypothetical protein; Provisional; Region: PRK07481 1335307001780 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 1335307001781 inhibitor-cofactor binding pocket; inhibition site 1335307001782 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307001783 catalytic residue [active] 1335307001784 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1335307001785 Protein of unknown function (DUF3156); Region: DUF3156; pfam11354 1335307001786 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1335307001787 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307001788 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307001789 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307001790 eyelet of channel; other site 1335307001791 trimer interface [polypeptide binding]; other site 1335307001792 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1335307001793 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1335307001794 Coenzyme A binding pocket [chemical binding]; other site 1335307001795 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1335307001796 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 1335307001797 FMN binding site [chemical binding]; other site 1335307001798 active site 1335307001799 substrate binding site [chemical binding]; other site 1335307001800 catalytic residue [active] 1335307001801 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 1335307001802 putative DNA binding site [nucleotide binding]; other site 1335307001803 dimerization interface [polypeptide binding]; other site 1335307001804 putative Zn2+ binding site [ion binding]; other site 1335307001805 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307001806 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307001807 trimer interface [polypeptide binding]; other site 1335307001808 eyelet of channel; other site 1335307001809 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1335307001810 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1335307001811 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 1335307001812 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 1335307001813 FOG: CBS domain [General function prediction only]; Region: COG0517 1335307001814 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 1335307001815 dimerization interface [polypeptide binding]; other site 1335307001816 active site 1335307001817 Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase; cl00205 1335307001818 NADH/NADPH cofactor binding site [chemical binding]; other site 1335307001819 Autoinducer synthetase; Region: Autoind_synth; cl17404 1335307001820 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 1335307001821 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1335307001822 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 1335307001823 DNA binding residues [nucleotide binding] 1335307001824 dimerization interface [polypeptide binding]; other site 1335307001825 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1335307001826 MgtC family; Region: MgtC; pfam02308 1335307001827 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1335307001828 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1335307001829 putative active site [active] 1335307001830 putative metal binding site [ion binding]; other site 1335307001831 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 1335307001832 putative FMN binding site [chemical binding]; other site 1335307001833 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 1335307001834 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1335307001835 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1335307001836 Bacterial transcriptional regulator; Region: IclR; pfam01614 1335307001837 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307001838 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307001839 trimer interface [polypeptide binding]; other site 1335307001840 eyelet of channel; other site 1335307001841 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 1335307001842 [2Fe-2S] cluster binding site [ion binding]; other site 1335307001843 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1335307001844 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 1335307001845 [2Fe-2S] cluster binding site [ion binding]; other site 1335307001846 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1335307001847 hydrophobic ligand binding site; other site 1335307001848 short chain dehydrogenase; Provisional; Region: PRK12939 1335307001849 classical (c) SDRs; Region: SDR_c; cd05233 1335307001850 NAD(P) binding site [chemical binding]; other site 1335307001851 active site 1335307001852 Cupin domain; Region: Cupin_2; pfam07883 1335307001853 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1335307001854 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1335307001855 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1335307001856 Bacterial transcriptional regulator; Region: IclR; pfam01614 1335307001857 short chain dehydrogenase; Provisional; Region: PRK07062 1335307001858 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1335307001859 putative NAD(P) binding site [chemical binding]; other site 1335307001860 putative active site [active] 1335307001861 hypothetical protein; Provisional; Region: PRK07064 1335307001862 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1335307001863 PYR/PP interface [polypeptide binding]; other site 1335307001864 dimer interface [polypeptide binding]; other site 1335307001865 TPP binding site [chemical binding]; other site 1335307001866 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1335307001867 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 1335307001868 TPP-binding site [chemical binding]; other site 1335307001869 L-aspartate dehydrogenase; Provisional; Region: PRK13303 1335307001870 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1335307001871 Domain of unknown function DUF108; Region: DUF108; pfam01958 1335307001872 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1335307001873 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 1335307001874 NAD(P) binding site [chemical binding]; other site 1335307001875 catalytic residues [active] 1335307001876 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 1335307001877 active site 1335307001878 metal binding site [ion binding]; metal-binding site 1335307001879 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 1335307001880 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 1335307001881 putative active site [active] 1335307001882 putative metal binding site [ion binding]; other site 1335307001883 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 1335307001884 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1335307001885 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1335307001886 benzoate transport; Region: 2A0115; TIGR00895 1335307001887 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 1335307001888 putative substrate translocation pore; other site 1335307001889 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 1335307001890 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1335307001891 trimer interface [polypeptide binding]; other site 1335307001892 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1335307001893 trimer interface [polypeptide binding]; other site 1335307001894 Haemagglutinin; Region: HIM; pfam05662 1335307001895 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1335307001896 trimer interface [polypeptide binding]; other site 1335307001897 Haemagglutinin; Region: HIM; pfam05662 1335307001898 Haemagglutinin; Region: HIM; pfam05662 1335307001899 YadA-like C-terminal region; Region: YadA; pfam03895 1335307001900 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1335307001901 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1335307001902 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1335307001903 ligand binding site [chemical binding]; other site 1335307001904 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 1335307001905 Ligand Binding Site [chemical binding]; other site 1335307001906 amidase; Provisional; Region: PRK07486 1335307001907 Amidase; Region: Amidase; cl11426 1335307001908 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1335307001909 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 1335307001910 dimerization interface [polypeptide binding]; other site 1335307001911 putative DNA binding site [nucleotide binding]; other site 1335307001912 putative Zn2+ binding site [ion binding]; other site 1335307001913 AsnC family; Region: AsnC_trans_reg; pfam01037 1335307001914 methionine gamma-lyase; Validated; Region: PRK07049 1335307001915 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 1335307001916 homodimer interface [polypeptide binding]; other site 1335307001917 substrate-cofactor binding pocket; other site 1335307001918 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307001919 catalytic residue [active] 1335307001920 N-acetyltransferase; Region: Acetyltransf_2; pfam00797 1335307001921 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 1335307001922 Predicted transcriptional regulator [Transcription]; Region: COG1959 1335307001923 Transcriptional regulator; Region: Rrf2; pfam02082 1335307001924 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1335307001925 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1335307001926 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307001927 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307001928 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 1335307001929 dimerization interface [polypeptide binding]; other site 1335307001930 hypothetical protein; Provisional; Region: PRK07079 1335307001931 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 1335307001932 metal binding site [ion binding]; metal-binding site 1335307001933 putative dimer interface [polypeptide binding]; other site 1335307001934 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 1335307001935 metabolite-proton symporter; Region: 2A0106; TIGR00883 1335307001936 putative substrate translocation pore; other site 1335307001937 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1335307001938 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1335307001939 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1335307001940 short chain dehydrogenase; Provisional; Region: PRK07832 1335307001941 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307001942 NAD(P) binding site [chemical binding]; other site 1335307001943 active site 1335307001944 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1335307001945 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1335307001946 YhhN-like protein; Region: YhhN; pfam07947 1335307001947 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1335307001948 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 1335307001949 substrate binding pocket [chemical binding]; other site 1335307001950 membrane-bound complex binding site; other site 1335307001951 hinge residues; other site 1335307001952 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 1335307001953 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1335307001954 DNA binding residues [nucleotide binding] 1335307001955 putative dimer interface [polypeptide binding]; other site 1335307001956 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1335307001957 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1335307001958 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1335307001959 Coenzyme A binding pocket [chemical binding]; other site 1335307001960 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1335307001961 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 1335307001962 putative substrate translocation pore; other site 1335307001963 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1335307001964 Tar ligand binding domain homologue; Region: TarH; pfam02203 1335307001965 dimer interface [polypeptide binding]; other site 1335307001966 ligand binding site [chemical binding]; other site 1335307001967 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1335307001968 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 1335307001969 dimerization interface [polypeptide binding]; other site 1335307001970 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1335307001971 dimer interface [polypeptide binding]; other site 1335307001972 putative CheW interface [polypeptide binding]; other site 1335307001973 Family description; Region: UvrD_C_2; pfam13538 1335307001974 BetR domain; Region: BetR; pfam08667 1335307001975 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 1335307001976 active site 1335307001977 phosphorylation site [posttranslational modification] 1335307001978 intermolecular recognition site; other site 1335307001979 dimerization interface [polypeptide binding]; other site 1335307001980 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1335307001981 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1335307001982 Ion channel; Region: Ion_trans_2; pfam07885 1335307001983 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1335307001984 TrkA-N domain; Region: TrkA_N; pfam02254 1335307001985 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1335307001986 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1335307001987 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1335307001988 ornithine cyclodeaminase; Validated; Region: PRK07340 1335307001989 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1335307001990 Putative esterase; Region: Esterase; pfam00756 1335307001991 OpgC protein; Region: OpgC_C; pfam10129 1335307001992 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307001993 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307001994 trimer interface [polypeptide binding]; other site 1335307001995 eyelet of channel; other site 1335307001996 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307001997 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307001998 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1335307001999 putative dimerization interface [polypeptide binding]; other site 1335307002000 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1335307002001 Peptidase family M23; Region: Peptidase_M23; pfam01551 1335307002002 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1335307002003 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1335307002004 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307002005 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 1335307002006 substrate binding pocket [chemical binding]; other site 1335307002007 dimerization interface [polypeptide binding]; other site 1335307002008 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1335307002009 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1335307002010 Walker A/P-loop; other site 1335307002011 ATP binding site [chemical binding]; other site 1335307002012 Q-loop/lid; other site 1335307002013 ABC transporter signature motif; other site 1335307002014 Walker B; other site 1335307002015 D-loop; other site 1335307002016 H-loop/switch region; other site 1335307002017 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1335307002018 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1335307002019 Walker A/P-loop; other site 1335307002020 ATP binding site [chemical binding]; other site 1335307002021 Q-loop/lid; other site 1335307002022 ABC transporter signature motif; other site 1335307002023 Walker B; other site 1335307002024 D-loop; other site 1335307002025 H-loop/switch region; other site 1335307002026 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1335307002027 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 1335307002028 dimer interface [polypeptide binding]; other site 1335307002029 conserved gate region; other site 1335307002030 putative PBP binding loops; other site 1335307002031 ABC-ATPase subunit interface; other site 1335307002032 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1335307002033 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 1335307002034 dimer interface [polypeptide binding]; other site 1335307002035 conserved gate region; other site 1335307002036 putative PBP binding loops; other site 1335307002037 ABC-ATPase subunit interface; other site 1335307002038 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 1335307002039 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1335307002040 D-alanyl-D-alanine dipeptidase; Provisional; Region: PRK10178 1335307002041 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1335307002042 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1335307002043 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 1335307002044 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1335307002045 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1335307002046 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1335307002047 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 1335307002048 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 1335307002049 PAAR motif; Region: PAAR_motif; pfam05488 1335307002050 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1335307002051 RHS Repeat; Region: RHS_repeat; cl11982 1335307002052 RHS Repeat; Region: RHS_repeat; pfam05593 1335307002053 RHS Repeat; Region: RHS_repeat; cl11982 1335307002054 RHS Repeat; Region: RHS_repeat; pfam05593 1335307002055 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1335307002056 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1335307002057 RHS Repeat; Region: RHS_repeat; pfam05593 1335307002058 RHS Repeat; Region: RHS_repeat; cl11982 1335307002059 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1335307002060 Transposase; Region: HTH_Tnp_1; pfam01527 1335307002061 Integrase core domain; Region: rve; pfam00665 1335307002062 Integrase core domain; Region: rve_3; pfam13683 1335307002063 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1335307002064 catalytic triad [active] 1335307002065 putative active site [active] 1335307002066 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1335307002067 Autotransporter beta-domain; Region: Autotransporter; smart00869 1335307002068 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1335307002069 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 1335307002070 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1335307002071 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 1335307002072 Cupin; Region: Cupin_1; smart00835 1335307002073 Cupin; Region: Cupin_1; smart00835 1335307002074 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 1335307002075 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1335307002076 Predicted membrane protein [Function unknown]; Region: COG4682 1335307002077 yiaA/B two helix domain; Region: YiaAB; pfam05360 1335307002078 yiaA/B two helix domain; Region: YiaAB; pfam05360 1335307002079 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 1335307002080 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1335307002081 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 1335307002082 putative molybdopterin cofactor binding site [chemical binding]; other site 1335307002083 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 1335307002084 putative molybdopterin cofactor binding site; other site 1335307002085 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 1335307002086 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1335307002087 DNA-binding site [nucleotide binding]; DNA binding site 1335307002088 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 1335307002089 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307002090 homodimer interface [polypeptide binding]; other site 1335307002091 catalytic residue [active] 1335307002092 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 1335307002093 magnesium-transporting ATPase; Provisional; Region: PRK15122 1335307002094 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1335307002095 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1335307002096 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1335307002097 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1335307002098 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1335307002099 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 1335307002100 active site 1335307002101 catalytic triad [active] 1335307002102 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 1335307002103 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1335307002104 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1335307002105 Cytochrome c; Region: Cytochrom_C; pfam00034 1335307002106 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1335307002107 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1335307002108 Cytochrome c; Region: Cytochrom_C; pfam00034 1335307002109 Predicted membrane protein [Function unknown]; Region: COG2259 1335307002110 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307002111 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307002112 trimer interface [polypeptide binding]; other site 1335307002113 eyelet of channel; other site 1335307002114 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 1335307002115 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1335307002116 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 1335307002117 dimer interface [polypeptide binding]; other site 1335307002118 conserved gate region; other site 1335307002119 putative PBP binding loops; other site 1335307002120 ABC-ATPase subunit interface; other site 1335307002121 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 1335307002122 dimer interface [polypeptide binding]; other site 1335307002123 conserved gate region; other site 1335307002124 putative PBP binding loops; other site 1335307002125 ABC-ATPase subunit interface; other site 1335307002126 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1335307002127 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1335307002128 Walker A/P-loop; other site 1335307002129 ATP binding site [chemical binding]; other site 1335307002130 Q-loop/lid; other site 1335307002131 ABC transporter signature motif; other site 1335307002132 Walker B; other site 1335307002133 D-loop; other site 1335307002134 H-loop/switch region; other site 1335307002135 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 1335307002136 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1335307002137 putative active site [active] 1335307002138 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1335307002139 H+ Antiporter protein; Region: 2A0121; TIGR00900 1335307002140 Histidine kinase; Region: His_kinase; pfam06580 1335307002141 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 1335307002142 ATP binding site [chemical binding]; other site 1335307002143 Mg2+ binding site [ion binding]; other site 1335307002144 G-X-G motif; other site 1335307002145 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1335307002146 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 1335307002147 active site 1335307002148 phosphorylation site [posttranslational modification] 1335307002149 intermolecular recognition site; other site 1335307002150 dimerization interface [polypeptide binding]; other site 1335307002151 LytTr DNA-binding domain; Region: LytTR; smart00850 1335307002152 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1335307002153 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 1335307002154 tetramer interface [polypeptide binding]; other site 1335307002155 heme binding pocket [chemical binding]; other site 1335307002156 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 1335307002157 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1335307002158 S-adenosylmethionine binding site [chemical binding]; other site 1335307002159 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 1335307002160 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1335307002161 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1335307002162 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 1335307002163 iron-sulfur cluster [ion binding]; other site 1335307002164 [2Fe-2S] cluster binding site [ion binding]; other site 1335307002165 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1335307002166 hydrophobic ligand binding site; other site 1335307002167 polyketide beta-ketoacyl:acyl carrier protein synthase; Validated; Region: PRK07103 1335307002168 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 1335307002169 dimer interface [polypeptide binding]; other site 1335307002170 active site 1335307002171 acyl carrier protein; Validated; Region: PRK07117 1335307002172 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1335307002173 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 1335307002174 substrate binding site [chemical binding]; other site 1335307002175 oxyanion hole (OAH) forming residues; other site 1335307002176 trimer interface [polypeptide binding]; other site 1335307002177 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 1335307002178 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1335307002179 substrate binding site [chemical binding]; other site 1335307002180 oxyanion hole (OAH) forming residues; other site 1335307002181 trimer interface [polypeptide binding]; other site 1335307002182 3-hydroxy-3-methylglutaryl CoA synthase [Lipid metabolism]; Region: PksG; COG3425 1335307002183 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 1335307002184 dimer interface [polypeptide binding]; other site 1335307002185 active site 1335307002186 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1335307002187 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1335307002188 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1335307002189 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1335307002190 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 1335307002191 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 1335307002192 active site 1335307002193 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 1335307002194 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 1335307002195 KR domain; Region: KR; pfam08659 1335307002196 putative NADP binding site [chemical binding]; other site 1335307002197 active site 1335307002198 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1335307002199 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 1335307002200 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 1335307002201 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 1335307002202 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1335307002203 catalytic residue [active] 1335307002204 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 1335307002205 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1335307002206 active site 1335307002207 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 1335307002208 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1335307002209 active site 1335307002210 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307002211 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1335307002212 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1335307002213 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307002214 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 1335307002215 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1335307002216 active site 1335307002217 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 1335307002218 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 1335307002219 putative NADP binding site [chemical binding]; other site 1335307002220 KR domain; Region: KR; pfam08659 1335307002221 active site 1335307002222 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1335307002223 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 1335307002224 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1335307002225 active site 1335307002226 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1335307002227 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1335307002228 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 1335307002229 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1335307002230 active site 1335307002231 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307002232 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1335307002233 NAD(P) binding site [chemical binding]; other site 1335307002234 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1335307002235 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1335307002236 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1335307002237 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 1335307002238 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1335307002239 active site 1335307002240 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1335307002241 Condensation domain; Region: Condensation; pfam00668 1335307002242 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1335307002243 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1335307002244 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1335307002245 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1335307002246 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1335307002247 acyl-activating enzyme (AAE) consensus motif; other site 1335307002248 AMP binding site [chemical binding]; other site 1335307002249 active site 1335307002250 CoA binding site [chemical binding]; other site 1335307002251 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307002252 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1335307002253 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 1335307002254 active site 1335307002255 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 1335307002256 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307002257 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1335307002258 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307002259 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 1335307002260 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 1335307002261 active site 1335307002262 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 1335307002263 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 1335307002264 putative NADP binding site [chemical binding]; other site 1335307002265 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1335307002266 active site 1335307002267 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1335307002268 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1335307002269 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307002270 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1335307002271 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1335307002272 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 1335307002273 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 1335307002274 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1335307002275 catalytic residue [active] 1335307002276 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 1335307002277 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 1335307002278 active site 1335307002279 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1335307002280 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1335307002281 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1335307002282 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 1335307002283 Cl- selectivity filter; other site 1335307002284 Cl- binding residues [ion binding]; other site 1335307002285 pore gating glutamate residue; other site 1335307002286 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 1335307002287 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 1335307002288 MarR family; Region: MarR_2; pfam12802 1335307002289 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 1335307002290 HPP family; Region: HPP; pfam04982 1335307002291 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 1335307002292 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307002293 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307002294 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 1335307002295 putative effector binding pocket; other site 1335307002296 dimerization interface [polypeptide binding]; other site 1335307002297 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 1335307002298 MarC family integral membrane protein; Region: MarC; cl00919 1335307002299 CAAX protease self-immunity; Region: Abi; pfam02517 1335307002300 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 1335307002301 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1335307002302 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1335307002303 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307002304 RNA polymerase sigma factor; Provisional; Region: PRK12547 1335307002305 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1335307002306 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 1335307002307 DNA binding residues [nucleotide binding] 1335307002308 YceI-like domain; Region: YceI; pfam04264 1335307002309 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1335307002310 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1335307002311 RNA polymerase sigma factor; Provisional; Region: PRK12528 1335307002312 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1335307002313 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 1335307002314 DNA binding residues [nucleotide binding] 1335307002315 fec operon regulator FecR; Reviewed; Region: PRK09774 1335307002316 FecR protein; Region: FecR; pfam04773 1335307002317 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1335307002318 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1335307002319 N-terminal plug; other site 1335307002320 ligand-binding site [chemical binding]; other site 1335307002321 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1335307002322 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 1335307002323 TM-ABC transporter signature motif; other site 1335307002324 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 1335307002325 D-xylose ABC transporter, ATP-binding protein; Region: xylG; TIGR02633 1335307002326 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1335307002327 Walker A/P-loop; other site 1335307002328 ATP binding site [chemical binding]; other site 1335307002329 Q-loop/lid; other site 1335307002330 ABC transporter signature motif; other site 1335307002331 Walker B; other site 1335307002332 D-loop; other site 1335307002333 H-loop/switch region; other site 1335307002334 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1335307002335 Methylthioribose-binding protein-like of 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_methylthioribose_binding_like; cd06305 1335307002336 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1335307002337 putative ligand binding site [chemical binding]; other site 1335307002338 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1335307002339 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1335307002340 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1335307002341 active site 1335307002342 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 1335307002343 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 1335307002344 putative substrate translocation pore; other site 1335307002345 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 1335307002346 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1335307002347 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 1335307002348 dimerization interface [polypeptide binding]; other site 1335307002349 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 1335307002350 dimer interface [polypeptide binding]; other site 1335307002351 phosphorylation site [posttranslational modification] 1335307002352 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 1335307002353 ATP binding site [chemical binding]; other site 1335307002354 Mg2+ binding site [ion binding]; other site 1335307002355 G-X-G motif; other site 1335307002356 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1335307002357 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 1335307002358 active site 1335307002359 phosphorylation site [posttranslational modification] 1335307002360 intermolecular recognition site; other site 1335307002361 dimerization interface [polypeptide binding]; other site 1335307002362 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 1335307002363 DNA binding site [nucleotide binding] 1335307002364 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1335307002365 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1335307002366 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1335307002367 HlyD family secretion protein; Region: HlyD_3; pfam13437 1335307002368 Outer membrane efflux protein; Region: OEP; pfam02321 1335307002369 Outer membrane efflux protein; Region: OEP; pfam02321 1335307002370 Adenosine specific kinase; Region: Adenosine_kin; pfam04008 1335307002371 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 1335307002372 putative deacylase active site [active] 1335307002373 Transposase; Region: HTH_Tnp_1; pfam01527 1335307002374 Integrase core domain; Region: rve; pfam00665 1335307002375 Predicted transcriptional regulators [Transcription]; Region: COG1733 1335307002376 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1335307002377 Isochorismatase family; Region: Isochorismatase; pfam00857 1335307002378 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1335307002379 catalytic triad [active] 1335307002380 dimer interface [polypeptide binding]; other site 1335307002381 conserved cis-peptide bond; other site 1335307002382 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 1335307002383 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1335307002384 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 1335307002385 active site 1335307002386 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 1335307002387 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307002388 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307002389 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 1335307002390 putative effector binding pocket; other site 1335307002391 dimerization interface [polypeptide binding]; other site 1335307002392 Transposase; Region: HTH_Tnp_1; pfam01527 1335307002393 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 1335307002394 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1335307002395 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1335307002396 metal binding site [ion binding]; metal-binding site 1335307002397 active site 1335307002398 I-site; other site 1335307002399 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 1335307002400 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1335307002401 DXD motif; other site 1335307002402 PilZ domain; Region: PilZ; pfam07238 1335307002403 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 1335307002404 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 1335307002405 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 1335307002406 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1335307002407 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1335307002408 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 1335307002409 Walker A motif; other site 1335307002410 ATP binding site [chemical binding]; other site 1335307002411 Walker B motif; other site 1335307002412 arginine finger; other site 1335307002413 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 1335307002414 Neisseria meningitidis TspB protein; Region: Neisseria_TspB; pfam05616 1335307002415 hypothetical protein; Region: PHA01083 1335307002416 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 1335307002417 sequence-specific DNA binding site [nucleotide binding]; other site 1335307002418 salt bridge; other site 1335307002419 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1335307002420 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1335307002421 hexamer interface [polypeptide binding]; other site 1335307002422 ligand binding site [chemical binding]; other site 1335307002423 putative active site [active] 1335307002424 NAD(P) binding site [chemical binding]; other site 1335307002425 H-NS histone family; Region: Histone_HNS; pfam00816 1335307002426 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1335307002427 putative kissing complex interaction region; other site 1335307002428 putative RNA binding sites [nucleotide binding]; other site 1335307002429 ProQ/FINO family; Region: ProQ; pfam04352 1335307002430 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 1335307002431 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1335307002432 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 1335307002433 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 1335307002434 nucleotide binding site [chemical binding]; other site 1335307002435 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1335307002436 SBD interface [polypeptide binding]; other site 1335307002437 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 1335307002438 nucleotide binding site [chemical binding]; other site 1335307002439 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1335307002440 SBD interface [polypeptide binding]; other site 1335307002441 DNA-K related protein; Region: DUF3731; pfam12531 1335307002442 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 1335307002443 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1335307002444 putative active site [active] 1335307002445 putative metal binding site [ion binding]; other site 1335307002446 plasma-membrane proton-efflux P-type ATPase; Region: ATPase-IIIA_H; TIGR01647 1335307002447 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 1335307002448 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1335307002449 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 1335307002450 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1335307002451 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1335307002452 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1335307002453 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1335307002454 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 1335307002455 S-adenosylmethionine binding site [chemical binding]; other site 1335307002456 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1335307002457 Mannan-binding protein; Region: MVL; pfam12151 1335307002458 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 1335307002459 dimer interface [polypeptide binding]; other site 1335307002460 substrate binding site [chemical binding]; other site 1335307002461 ATP binding site [chemical binding]; other site 1335307002462 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 1335307002463 Thymidylate synthase; Region: Thymidylat_synt; pfam00303 1335307002464 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 1335307002465 dimerization interface [polypeptide binding]; other site 1335307002466 active site 1335307002467 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl17818 1335307002468 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 1335307002469 nudix motif; other site 1335307002470 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1335307002471 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 1335307002472 S-adenosylmethionine binding site [chemical binding]; other site 1335307002473 Protein of unknown function (DUF971); Region: DUF971; cl01414 1335307002474 gamma-butyrobetaine hydroxylase; Region: carnitine_bodg; TIGR02409 1335307002475 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1335307002476 substrate binding pocket [chemical binding]; other site 1335307002477 active site 1335307002478 iron coordination sites [ion binding]; other site 1335307002479 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 1335307002480 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1335307002481 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1335307002482 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1335307002483 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 1335307002484 Walker A motif; other site 1335307002485 ATP binding site [chemical binding]; other site 1335307002486 Walker B motif; other site 1335307002487 arginine finger; other site 1335307002488 Peptidase family M41; Region: Peptidase_M41; pfam01434 1335307002489 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1335307002490 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 1335307002491 active site 1335307002492 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 1335307002493 Predicted transcriptional regulator [Transcription]; Region: COG2345 1335307002494 MarR family; Region: MarR_2; pfam12802 1335307002495 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1335307002496 Protein of unknown function (DUF2505); Region: DUF2505; pfam10698 1335307002497 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1335307002498 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1335307002499 HlyD family secretion protein; Region: HlyD_3; pfam13437 1335307002500 multidrug efflux protein; Reviewed; Region: PRK09579 1335307002501 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1335307002502 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 1335307002503 dimerization interface [polypeptide binding]; other site 1335307002504 active site 1335307002505 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1335307002506 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 1335307002507 structural tetrad; other site 1335307002508 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1335307002509 structural tetrad; other site 1335307002510 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1335307002511 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1335307002512 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 1335307002513 S-adenosylmethionine binding site [chemical binding]; other site 1335307002514 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1335307002515 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1335307002516 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 1335307002517 catalytic motif [active] 1335307002518 Zn binding site [ion binding]; other site 1335307002519 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 1335307002520 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 1335307002521 S-adenosylmethionine binding site [chemical binding]; other site 1335307002522 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1335307002523 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 1335307002524 active site 1335307002525 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 1335307002526 putative substrate translocation pore; other site 1335307002527 Predicted small integral membrane protein (DUF2165); Region: DUF2165; cl02290 1335307002528 PAS fold; Region: PAS_4; pfam08448 1335307002529 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 1335307002530 DNA binding residues [nucleotide binding] 1335307002531 dimerization interface [polypeptide binding]; other site 1335307002532 SnoaL-like domain; Region: SnoaL_2; pfam12680 1335307002533 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1335307002534 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 1335307002535 active site 1335307002536 FMN binding site [chemical binding]; other site 1335307002537 2,4-decadienoyl-CoA binding site; other site 1335307002538 catalytic residue [active] 1335307002539 4Fe-4S cluster binding site [ion binding]; other site 1335307002540 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1335307002541 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1335307002542 Predicted transcriptional regulators [Transcription]; Region: COG1695 1335307002543 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1335307002544 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 1335307002545 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 1335307002546 substrate binding site [chemical binding]; other site 1335307002547 multimerization interface [polypeptide binding]; other site 1335307002548 ATP binding site [chemical binding]; other site 1335307002549 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1335307002550 substrate binding pocket [chemical binding]; other site 1335307002551 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1335307002552 active site 1335307002553 iron coordination sites [ion binding]; other site 1335307002554 Membrane transport protein; Region: Mem_trans; cl09117 1335307002555 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 1335307002556 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 1335307002557 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 1335307002558 Ligand Binding Site [chemical binding]; other site 1335307002559 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 1335307002560 Ligand Binding Site [chemical binding]; other site 1335307002561 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 1335307002562 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 1335307002563 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 1335307002564 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 1335307002565 hydrogenase 4 subunit F; Validated; Region: PRK06458 1335307002566 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1335307002567 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 1335307002568 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1335307002569 NADH dehydrogenase; Region: NADHdh; cl00469 1335307002570 hydrogenase 4 subunit B; Validated; Region: PRK06521 1335307002571 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1335307002572 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1335307002573 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 1335307002574 regulatory phosphorylation site [posttranslational modification]; other site 1335307002575 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 1335307002576 S-adenosylmethionine binding site [chemical binding]; other site 1335307002577 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1335307002578 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1335307002579 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 1335307002580 putative substrate translocation pore; other site 1335307002581 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1335307002582 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 1335307002583 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 1335307002584 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 1335307002585 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1335307002586 4Fe-4S binding domain; Region: Fer4; cl02805 1335307002587 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 1335307002588 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 1335307002589 [4Fe-4S] binding site [ion binding]; other site 1335307002590 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 1335307002591 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 1335307002592 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 1335307002593 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 1335307002594 molybdopterin cofactor binding site; other site 1335307002595 CHASE domain; Region: CHASE; cl01369 1335307002596 PAS domain S-box; Region: sensory_box; TIGR00229 1335307002597 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 1335307002598 putative active site [active] 1335307002599 heme pocket [chemical binding]; other site 1335307002600 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1335307002601 Histidine kinase; Region: HisKA_3; pfam07730 1335307002602 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 1335307002603 ATP binding site [chemical binding]; other site 1335307002604 Mg2+ binding site [ion binding]; other site 1335307002605 G-X-G motif; other site 1335307002606 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1335307002607 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 1335307002608 active site 1335307002609 phosphorylation site [posttranslational modification] 1335307002610 intermolecular recognition site; other site 1335307002611 dimerization interface [polypeptide binding]; other site 1335307002612 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 1335307002613 DNA binding residues [nucleotide binding] 1335307002614 dimerization interface [polypeptide binding]; other site 1335307002615 Response regulator receiver domain; Region: Response_reg; pfam00072 1335307002616 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 1335307002617 active site 1335307002618 phosphorylation site [posttranslational modification] 1335307002619 intermolecular recognition site; other site 1335307002620 dimerization interface [polypeptide binding]; other site 1335307002621 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1335307002622 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 1335307002623 ligand binding site [chemical binding]; other site 1335307002624 flexible hinge region; other site 1335307002625 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 1335307002626 putative switch regulator; other site 1335307002627 non-specific DNA interactions [nucleotide binding]; other site 1335307002628 DNA binding site [nucleotide binding] 1335307002629 sequence specific DNA binding site [nucleotide binding]; other site 1335307002630 putative cAMP binding site [chemical binding]; other site 1335307002631 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 1335307002632 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 1335307002633 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1335307002634 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1335307002635 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1335307002636 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 1335307002637 putative substrate translocation pore; other site 1335307002638 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1335307002639 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1335307002640 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1335307002641 Predicted membrane protein (DUF2070); Region: DUF2070; pfam09843 1335307002642 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 1335307002643 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1335307002644 active site 1335307002645 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307002646 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1335307002647 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1335307002648 acyl-activating enzyme (AAE) consensus motif; other site 1335307002649 AMP binding site [chemical binding]; other site 1335307002650 active site 1335307002651 CoA binding site [chemical binding]; other site 1335307002652 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307002653 Condensation domain; Region: Condensation; pfam00668 1335307002654 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1335307002655 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1335307002656 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 1335307002657 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 1335307002658 active site 1335307002659 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 1335307002660 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1335307002661 putative NADP binding site [chemical binding]; other site 1335307002662 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307002663 NAD(P) binding site [chemical binding]; other site 1335307002664 active site 1335307002665 active site 1335307002666 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307002667 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 1335307002668 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 1335307002669 active site 1335307002670 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1335307002671 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 1335307002672 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1335307002673 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307002674 NAD(P) binding site [chemical binding]; other site 1335307002675 active site 1335307002676 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307002677 Condensation domain; Region: Condensation; pfam00668 1335307002678 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1335307002679 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 1335307002680 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1335307002681 acyl-activating enzyme (AAE) consensus motif; other site 1335307002682 AMP binding site [chemical binding]; other site 1335307002683 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307002684 Condensation domain; Region: Condensation; pfam00668 1335307002685 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1335307002686 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1335307002687 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1335307002688 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1335307002689 active site 1335307002690 Zn binding site [ion binding]; other site 1335307002691 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 1335307002692 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1335307002693 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 1335307002694 DNA binding residues [nucleotide binding] 1335307002695 dimerization interface [polypeptide binding]; other site 1335307002696 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1335307002697 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1335307002698 Autoinducer synthetase; Region: Autoind_synth; cl17404 1335307002699 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 1335307002700 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1335307002701 acyl-activating enzyme (AAE) consensus motif; other site 1335307002702 AMP binding site [chemical binding]; other site 1335307002703 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307002704 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1335307002705 shikimate transporter; Provisional; Region: PRK09952 1335307002706 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1335307002707 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1335307002708 acyl-CoA synthetase; Validated; Region: PRK05850 1335307002709 acyl-activating enzyme (AAE) consensus motif; other site 1335307002710 active site 1335307002711 AMP binding site [chemical binding]; other site 1335307002712 CoA binding site [chemical binding]; other site 1335307002713 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1335307002714 CoA binding site [chemical binding]; other site 1335307002715 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1335307002716 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1335307002717 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 1335307002718 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1335307002719 catalytic residue [active] 1335307002720 Condensation domain; Region: Condensation; pfam00668 1335307002721 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 1335307002722 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1335307002723 acyl-activating enzyme (AAE) consensus motif; other site 1335307002724 AMP binding site [chemical binding]; other site 1335307002725 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307002726 Condensation domain; Region: Condensation; pfam00668 1335307002727 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1335307002728 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1335307002729 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1335307002730 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1335307002731 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1335307002732 acyl-activating enzyme (AAE) consensus motif; other site 1335307002733 AMP binding site [chemical binding]; other site 1335307002734 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307002735 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 1335307002736 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; cl00184 1335307002737 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 1335307002738 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1335307002739 active site 1335307002740 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1335307002741 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 1335307002742 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307002743 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 1335307002744 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1335307002745 catalytic residue [active] 1335307002746 Condensation domain; Region: Condensation; pfam00668 1335307002747 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1335307002748 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1335307002749 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1335307002750 acyl-activating enzyme (AAE) consensus motif; other site 1335307002751 AMP binding site [chemical binding]; other site 1335307002752 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307002753 Condensation domain; Region: Condensation; pfam00668 1335307002754 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1335307002755 major capsid protein; Region: PHA00665 1335307002756 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1335307002757 DNA-binding site [nucleotide binding]; DNA binding site 1335307002758 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 1335307002759 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 1335307002760 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307002761 homodimer interface [polypeptide binding]; other site 1335307002762 catalytic residue [active] 1335307002763 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1335307002764 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1335307002765 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1335307002766 Predicted small secreted protein [Function unknown]; Region: COG5510 1335307002767 aspartate carbamoyltransferase; Provisional; Region: PRK11891 1335307002768 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1335307002769 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1335307002770 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1335307002771 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1335307002772 N-terminal plug; other site 1335307002773 ligand-binding site [chemical binding]; other site 1335307002774 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1335307002775 Sel1 repeat; Region: Sel1; cl02723 1335307002776 Sel1-like repeats; Region: SEL1; smart00671 1335307002777 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 1335307002778 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1335307002779 Uncharacterized conserved protein [Function unknown]; Region: COG4104 1335307002780 Protein of unknown function (DUF2875); Region: DUF2875; pfam11394 1335307002781 Protein of unknown function (DUF3274); Region: DUF3274; pfam11678 1335307002782 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 1335307002783 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1335307002784 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1335307002785 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1335307002786 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 1335307002787 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 1335307002788 DNA binding residues [nucleotide binding] 1335307002789 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 1335307002790 metabolite-proton symporter; Region: 2A0106; TIGR00883 1335307002791 putative substrate translocation pore; other site 1335307002792 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1335307002793 metal-binding site 1335307002794 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 1335307002795 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1335307002796 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 1335307002797 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1335307002798 dimer interface [polypeptide binding]; other site 1335307002799 putative CheW interface [polypeptide binding]; other site 1335307002800 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1335307002801 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1335307002802 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1335307002803 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 1335307002804 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 1335307002805 ligand binding site [chemical binding]; other site 1335307002806 short chain dehydrogenase; Provisional; Region: PRK07074 1335307002807 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307002808 NAD(P) binding site [chemical binding]; other site 1335307002809 active site 1335307002810 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1335307002811 putative cation:proton antiport protein; Provisional; Region: PRK10669 1335307002812 TrkA-N domain; Region: TrkA_N; pfam02254 1335307002813 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1335307002814 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1335307002815 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1335307002816 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 1335307002817 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1335307002818 dimer interface [polypeptide binding]; other site 1335307002819 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1335307002820 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 1335307002821 Cl binding site [ion binding]; other site 1335307002822 oligomer interface [polypeptide binding]; other site 1335307002823 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1335307002824 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1335307002825 Electron transfer DM13; Region: DM13; pfam10517 1335307002826 Integrase core domain; Region: rve; pfam00665 1335307002827 Integrase core domain; Region: rve_3; pfam13683 1335307002828 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1335307002829 Transposase; Region: HTH_Tnp_1; pfam01527 1335307002830 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1335307002831 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1335307002832 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 1335307002833 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1335307002834 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 1335307002835 dimer interface [polypeptide binding]; other site 1335307002836 conserved gate region; other site 1335307002837 putative PBP binding loops; other site 1335307002838 ABC-ATPase subunit interface; other site 1335307002839 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1335307002840 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 1335307002841 inhibitor binding site; inhibition site 1335307002842 catalytic Zn binding site [ion binding]; other site 1335307002843 structural Zn binding site [ion binding]; other site 1335307002844 NADP binding site [chemical binding]; other site 1335307002845 tetramer interface [polypeptide binding]; other site 1335307002846 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1335307002847 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307002848 Walker A/P-loop; other site 1335307002849 ATP binding site [chemical binding]; other site 1335307002850 Q-loop/lid; other site 1335307002851 ABC transporter signature motif; other site 1335307002852 Walker B; other site 1335307002853 D-loop; other site 1335307002854 H-loop/switch region; other site 1335307002855 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1335307002856 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1335307002857 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307002858 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307002859 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1335307002860 N- and C-terminal domain interface [polypeptide binding]; other site 1335307002861 active site 1335307002862 MgATP binding site [chemical binding]; other site 1335307002863 catalytic site [active] 1335307002864 metal binding site [ion binding]; metal-binding site 1335307002865 xylulose binding site [chemical binding]; other site 1335307002866 homodimer interface [polypeptide binding]; other site 1335307002867 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1335307002868 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1335307002869 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1335307002870 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1335307002871 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1335307002872 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 1335307002873 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1335307002874 [4Fe-4S] binding site [ion binding]; other site 1335307002875 molybdopterin cofactor binding site; other site 1335307002876 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 1335307002877 molybdopterin cofactor binding site; other site 1335307002878 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1335307002879 Flavodoxin; Region: Flavodoxin_1; pfam00258 1335307002880 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 1335307002881 FAD binding pocket [chemical binding]; other site 1335307002882 FAD binding motif [chemical binding]; other site 1335307002883 catalytic residues [active] 1335307002884 NAD binding pocket [chemical binding]; other site 1335307002885 phosphate binding motif [ion binding]; other site 1335307002886 beta-alpha-beta structure motif; other site 1335307002887 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 1335307002888 nitrite reductase subunit NirD; Provisional; Region: PRK14989 1335307002889 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1335307002890 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1335307002891 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1335307002892 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 1335307002893 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1335307002894 active site 1335307002895 SAM binding site [chemical binding]; other site 1335307002896 homodimer interface [polypeptide binding]; other site 1335307002897 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 1335307002898 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 1335307002899 active site 1335307002900 phosphorylation site [posttranslational modification] 1335307002901 intermolecular recognition site; other site 1335307002902 dimerization interface [polypeptide binding]; other site 1335307002903 ANTAR domain; Region: ANTAR; pfam03861 1335307002904 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1335307002905 NMT1-like family; Region: NMT1_2; pfam13379 1335307002906 GTP cyclohydrolase I; Reviewed; Region: PRK12606 1335307002907 GTP cyclohydrolase I; Provisional; Region: PLN03044 1335307002908 active site 1335307002909 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1335307002910 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 1335307002911 active site 1335307002912 Zn binding site [ion binding]; other site 1335307002913 allantoate amidohydrolase; Reviewed; Region: PRK12893 1335307002914 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1335307002915 active site 1335307002916 metal binding site [ion binding]; metal-binding site 1335307002917 dimer interface [polypeptide binding]; other site 1335307002918 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 1335307002919 metabolite-proton symporter; Region: 2A0106; TIGR00883 1335307002920 putative substrate translocation pore; other site 1335307002921 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307002922 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307002923 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 1335307002924 dimerization interface [polypeptide binding]; other site 1335307002925 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307002926 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307002927 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1335307002928 putative effector binding pocket; other site 1335307002929 putative dimerization interface [polypeptide binding]; other site 1335307002930 short chain dehydrogenase; Provisional; Region: PRK12937 1335307002931 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 1335307002932 NADP binding site [chemical binding]; other site 1335307002933 homodimer interface [polypeptide binding]; other site 1335307002934 active site 1335307002935 substrate binding site [chemical binding]; other site 1335307002936 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1335307002937 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1335307002938 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1335307002939 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1335307002940 NAD(P) binding site [chemical binding]; other site 1335307002941 substrate binding site [chemical binding]; other site 1335307002942 dimer interface [polypeptide binding]; other site 1335307002943 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 1335307002944 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 1335307002945 dimer interface [polypeptide binding]; other site 1335307002946 active site 1335307002947 metal binding site [ion binding]; metal-binding site 1335307002948 Peptidase M66; Region: Peptidase_M66; pfam10462 1335307002949 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 1335307002950 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 1335307002951 Domain of unknown function (DUF802); Region: DUF802; pfam05650 1335307002952 hypothetical protein; Provisional; Region: PRK09040 1335307002953 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1335307002954 ligand binding site [chemical binding]; other site 1335307002955 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 1335307002956 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 1335307002957 Condensation domain; Region: Condensation; pfam00668 1335307002958 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1335307002959 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1335307002960 acyl-activating enzyme (AAE) consensus motif; other site 1335307002961 AMP binding site [chemical binding]; other site 1335307002962 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307002963 MbtH-like protein; Region: MbtH; pfam03621 1335307002964 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1335307002965 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 1335307002966 Condensation domain; Region: Condensation; pfam00668 1335307002967 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1335307002968 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1335307002969 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1335307002970 acyl-activating enzyme (AAE) consensus motif; other site 1335307002971 AMP binding site [chemical binding]; other site 1335307002972 Condensation domain; Region: Condensation; pfam00668 1335307002973 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1335307002974 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1335307002975 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1335307002976 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1335307002977 acyl-activating enzyme (AAE) consensus motif; other site 1335307002978 AMP binding site [chemical binding]; other site 1335307002979 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307002980 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 1335307002981 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 1335307002982 active site 1335307002983 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 1335307002984 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 1335307002985 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 1335307002986 KR domain; Region: KR; pfam08659 1335307002987 putative NADP binding site [chemical binding]; other site 1335307002988 active site 1335307002989 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307002990 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 1335307002991 Biofilm formation and stress response factor; Region: BsmA; pfam10014 1335307002992 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1335307002993 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1335307002994 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1335307002995 active site 1335307002996 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1335307002997 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1335307002998 active site 1335307002999 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 1335307003000 acyl-CoA synthetase; Validated; Region: PRK05850 1335307003001 acyl-activating enzyme (AAE) consensus motif; other site 1335307003002 active site 1335307003003 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1335307003004 RNA polymerase factor sigma-70; Validated; Region: PRK09047 1335307003005 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 1335307003006 DNA binding residues [nucleotide binding] 1335307003007 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1335307003008 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1335307003009 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1335307003010 EamA-like transporter family; Region: EamA; pfam00892 1335307003011 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1335307003012 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 1335307003013 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1335307003014 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1335307003015 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1335307003016 threonine dehydratase; Reviewed; Region: PRK09224 1335307003017 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 1335307003018 tetramer interface [polypeptide binding]; other site 1335307003019 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307003020 catalytic residue [active] 1335307003021 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1335307003022 putative Ile/Val binding site [chemical binding]; other site 1335307003023 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1335307003024 putative Ile/Val binding site [chemical binding]; other site 1335307003025 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 1335307003026 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1335307003027 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1335307003028 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 1335307003029 linker region; other site 1335307003030 HlyD family secretion protein; Region: HlyD_3; pfam13437 1335307003031 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1335307003032 putative acyl-acceptor binding pocket; other site 1335307003033 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 1335307003034 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 1335307003035 putative active site [active] 1335307003036 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1335307003037 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1335307003038 Walker A/P-loop; other site 1335307003039 ATP binding site [chemical binding]; other site 1335307003040 Q-loop/lid; other site 1335307003041 ABC transporter signature motif; other site 1335307003042 Walker B; other site 1335307003043 D-loop; other site 1335307003044 H-loop/switch region; other site 1335307003045 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1335307003046 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1335307003047 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1335307003048 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 1335307003049 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 1335307003050 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 1335307003051 ATP binding site [chemical binding]; other site 1335307003052 putative Mg++ binding site [ion binding]; other site 1335307003053 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 1335307003054 nucleotide binding region [chemical binding]; other site 1335307003055 ATP-binding site [chemical binding]; other site 1335307003056 DEAD/H associated; Region: DEAD_assoc; pfam08494 1335307003057 putative transporter; Provisional; Region: PRK11021 1335307003058 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 1335307003059 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1335307003060 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1335307003061 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1335307003062 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 1335307003063 S-adenosylmethionine binding site [chemical binding]; other site 1335307003064 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1335307003065 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1335307003066 metal binding site [ion binding]; metal-binding site 1335307003067 active site 1335307003068 I-site; other site 1335307003069 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1335307003070 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307003071 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 1335307003072 dimerization interface [polypeptide binding]; other site 1335307003073 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta 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_beta; cd03464 1335307003074 heterodimer interface [polypeptide binding]; other site 1335307003075 multimer interface [polypeptide binding]; other site 1335307003076 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 1335307003077 active site 1335307003078 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 1335307003079 active site 1335307003080 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 1335307003081 SxDxEG motif; other site 1335307003082 active site 1335307003083 metal binding site [ion binding]; metal-binding site 1335307003084 homopentamer interface [polypeptide binding]; other site 1335307003085 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 1335307003086 homotetramer interface [polypeptide binding]; other site 1335307003087 DmpA/OAT superfamily; composed of L-aminopeptidase D-amidase/D-esterase (DmpA), ornithine acetyltransferase (OAT) and similar proteins. DmpA is an aminopeptidase that releases N-terminal D and L amino acids from peptide substrates. This group represents...; Region: DmpA_OAT; cl00603 1335307003088 cleavage site 1335307003089 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 1335307003090 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1335307003091 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 1335307003092 dimer interface [polypeptide binding]; other site 1335307003093 conserved gate region; other site 1335307003094 putative PBP binding loops; other site 1335307003095 ABC-ATPase subunit interface; other site 1335307003096 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 1335307003097 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 1335307003098 dimer interface [polypeptide binding]; other site 1335307003099 conserved gate region; other site 1335307003100 putative PBP binding loops; other site 1335307003101 ABC-ATPase subunit interface; other site 1335307003102 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 1335307003103 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 1335307003104 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1335307003105 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1335307003106 Walker A/P-loop; other site 1335307003107 ATP binding site [chemical binding]; other site 1335307003108 Q-loop/lid; other site 1335307003109 ABC transporter signature motif; other site 1335307003110 Walker B; other site 1335307003111 D-loop; other site 1335307003112 H-loop/switch region; other site 1335307003113 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1335307003114 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1335307003115 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1335307003116 Walker A/P-loop; other site 1335307003117 ATP binding site [chemical binding]; other site 1335307003118 Q-loop/lid; other site 1335307003119 ABC transporter signature motif; other site 1335307003120 Walker B; other site 1335307003121 D-loop; other site 1335307003122 H-loop/switch region; other site 1335307003123 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1335307003124 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 1335307003125 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 1335307003126 catalytic nucleophile [active] 1335307003127 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1335307003128 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1335307003129 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 1335307003130 putative active site [active] 1335307003131 BCCT family transporter; Region: BCCT; pfam02028 1335307003132 Beta-lactamase; Region: Beta-lactamase; pfam00144 1335307003133 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1335307003134 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1335307003135 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1335307003136 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1335307003137 active site 1335307003138 HIGH motif; other site 1335307003139 nucleotide binding site [chemical binding]; other site 1335307003140 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1335307003141 active site 1335307003142 KMSKS motif; other site 1335307003143 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1335307003144 tRNA binding surface [nucleotide binding]; other site 1335307003145 anticodon binding site; other site 1335307003146 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1335307003147 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1335307003148 EamA-like transporter family; Region: EamA; pfam00892 1335307003149 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 1335307003150 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1335307003151 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1335307003152 FAD binding domain; Region: FAD_binding_4; pfam01565 1335307003153 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 1335307003154 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1335307003155 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 1335307003156 S-adenosylmethionine binding site [chemical binding]; other site 1335307003157 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1335307003158 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1335307003159 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307003160 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 1335307003161 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 1335307003162 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307003163 catalytic residue [active] 1335307003164 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1335307003165 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 1335307003166 putative DNA binding site [nucleotide binding]; other site 1335307003167 putative Zn2+ binding site [ion binding]; other site 1335307003168 AsnC family; Region: AsnC_trans_reg; pfam01037 1335307003169 LabA_like proteins; Region: LabA_like; cd06167 1335307003170 putative metal binding site [ion binding]; other site 1335307003171 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1335307003172 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 1335307003173 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 1335307003174 putative substrate translocation pore; other site 1335307003175 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1335307003176 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1335307003177 DNA-binding site [nucleotide binding]; DNA binding site 1335307003178 UTRA domain; Region: UTRA; pfam07702 1335307003179 benzoate transport; Region: 2A0115; TIGR00895 1335307003180 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 1335307003181 putative substrate translocation pore; other site 1335307003182 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1335307003183 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 1335307003184 active site 1335307003185 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1335307003186 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1335307003187 active site 1335307003188 metal binding site [ion binding]; metal-binding site 1335307003189 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 1335307003190 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 1335307003191 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 1335307003192 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 1335307003193 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1335307003194 Coenzyme A binding pocket [chemical binding]; other site 1335307003195 Predicted transporter component [General function prediction only]; Region: COG2391 1335307003196 Sulphur transport; Region: Sulf_transp; pfam04143 1335307003197 Predicted transporter component [General function prediction only]; Region: COG2391 1335307003198 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 1335307003199 dimerization interface [polypeptide binding]; other site 1335307003200 putative DNA binding site [nucleotide binding]; other site 1335307003201 putative Zn2+ binding site [ion binding]; other site 1335307003202 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1335307003203 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1335307003204 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 1335307003205 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1335307003206 catalytic residue [active] 1335307003207 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 1335307003208 non-specific DNA binding site [nucleotide binding]; other site 1335307003209 salt bridge; other site 1335307003210 sequence-specific DNA binding site [nucleotide binding]; other site 1335307003211 serine O-acetyltransferase; Region: cysE; TIGR01172 1335307003212 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 1335307003213 trimer interface [polypeptide binding]; other site 1335307003214 active site 1335307003215 substrate binding site [chemical binding]; other site 1335307003216 CoA binding site [chemical binding]; other site 1335307003217 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 1335307003218 active site residue [active] 1335307003219 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1335307003220 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1335307003221 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1335307003222 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1335307003223 HlyD family secretion protein; Region: HlyD_3; pfam13437 1335307003224 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1335307003225 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 1335307003226 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 1335307003227 Ligand binding site; other site 1335307003228 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1335307003229 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 1335307003230 putative substrate translocation pore; other site 1335307003231 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 1335307003232 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 1335307003233 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 1335307003234 active site 1335307003235 TDP-binding site; other site 1335307003236 acceptor substrate-binding pocket; other site 1335307003237 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1335307003238 transcriptional regulator BetI; Validated; Region: PRK00767 1335307003239 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1335307003240 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1335307003241 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 1335307003242 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1335307003243 NAD(P) binding site [chemical binding]; other site 1335307003244 catalytic residues [active] 1335307003245 choline dehydrogenase; Validated; Region: PRK02106 1335307003246 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1335307003247 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 1335307003248 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 1335307003249 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1335307003250 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 1335307003251 active site 1335307003252 phosphorylation site [posttranslational modification] 1335307003253 intermolecular recognition site; other site 1335307003254 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 1335307003255 PAS fold; Region: PAS_3; pfam08447 1335307003256 putative active site [active] 1335307003257 heme pocket [chemical binding]; other site 1335307003258 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1335307003259 Histidine kinase; Region: HisKA_3; pfam07730 1335307003260 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 1335307003261 ATP binding site [chemical binding]; other site 1335307003262 Mg2+ binding site [ion binding]; other site 1335307003263 G-X-G motif; other site 1335307003264 Response regulator receiver domain; Region: Response_reg; pfam00072 1335307003265 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 1335307003266 active site 1335307003267 phosphorylation site [posttranslational modification] 1335307003268 intermolecular recognition site; other site 1335307003269 dimerization interface [polypeptide binding]; other site 1335307003270 CHASE3 domain; Region: CHASE3; pfam05227 1335307003271 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 1335307003272 PAS domain; Region: PAS_9; pfam13426 1335307003273 putative active site [active] 1335307003274 heme pocket [chemical binding]; other site 1335307003275 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1335307003276 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 1335307003277 putative active site [active] 1335307003278 heme pocket [chemical binding]; other site 1335307003279 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 1335307003280 dimer interface [polypeptide binding]; other site 1335307003281 phosphorylation site [posttranslational modification] 1335307003282 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 1335307003283 ATP binding site [chemical binding]; other site 1335307003284 Mg2+ binding site [ion binding]; other site 1335307003285 G-X-G motif; other site 1335307003286 OsmC-like protein; Region: OsmC; cl00767 1335307003287 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1335307003288 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1335307003289 putative ligand binding site [chemical binding]; other site 1335307003290 NAD binding site [chemical binding]; other site 1335307003291 catalytic site [active] 1335307003292 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 1335307003293 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 1335307003294 DNA-binding site [nucleotide binding]; DNA binding site 1335307003295 RNA-binding motif; other site 1335307003296 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 1335307003297 active site 1335307003298 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 1335307003299 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 1335307003300 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1335307003301 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1335307003302 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1335307003303 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 1335307003304 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 1335307003305 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1335307003306 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1335307003307 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1335307003308 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1335307003309 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1335307003310 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1335307003311 conserved cys residue [active] 1335307003312 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307003313 hypothetical protein; Provisional; Region: PRK11239 1335307003314 Protein of unknown function, DUF480; Region: DUF480; pfam04337 1335307003315 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1335307003316 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 1335307003317 dimer interface [polypeptide binding]; other site 1335307003318 N-terminal domain interface [polypeptide binding]; other site 1335307003319 substrate binding pocket (H-site) [chemical binding]; other site 1335307003320 Low affinity iron permease; Region: Iron_permease; pfam04120 1335307003321 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1335307003322 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1335307003323 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1335307003324 Domain of unknown function (DUF305); Region: DUF305; pfam03713 1335307003325 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1335307003326 MgtC family; Region: MgtC; pfam02308 1335307003327 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 1335307003328 putative active site [active] 1335307003329 catalytic site [active] 1335307003330 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 1335307003331 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1335307003332 putative active site [active] 1335307003333 catalytic site [active] 1335307003334 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1335307003335 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1335307003336 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1335307003337 putative catalytic site [active] 1335307003338 putative metal binding site [ion binding]; other site 1335307003339 putative phosphate binding site [ion binding]; other site 1335307003340 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1335307003341 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1335307003342 type II secretion system protein D; Region: type_II_gspD; TIGR02517 1335307003343 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1335307003344 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1335307003345 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1335307003346 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1335307003347 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 1335307003348 type III secretion protein HrpB7; Region: HrpB7; TIGR02559 1335307003349 type III secretion system ATPase; Provisional; Region: PRK09099 1335307003350 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1335307003351 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 1335307003352 Walker A motif; other site 1335307003353 ATP binding site [chemical binding]; other site 1335307003354 Walker B motif; other site 1335307003355 type III secretion system protein HrpB; Validated; Region: PRK09098 1335307003356 Flagellar assembly protein FliH; Region: FliH; pfam02108 1335307003357 type III secretion protein HrpB4; Region: HrpB4; TIGR02560 1335307003358 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1335307003359 type III secretion protein HrpB2; Region: HrpB2; TIGR02558 1335307003360 type III secretion protein HrpB1/HrpK; Region: HrpB1_HrpK; TIGR02561 1335307003361 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 1335307003362 TPR motif; other site 1335307003363 binding surface 1335307003364 type III secretion system protein HrcU; Validated; Region: PRK09108 1335307003365 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1335307003366 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 1335307003367 FHIPEP family; Region: FHIPEP; pfam00771 1335307003368 type III secretion protein HpaP; Region: HpaP; TIGR02557 1335307003369 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 1335307003370 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1335307003371 type III secretion system protein YscR; Provisional; Region: PRK12797 1335307003372 Type III secretory pathway, component EscS [Intracellular trafficking and secretion]; Region: EscS; COG4794 1335307003373 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 1335307003374 Tir chaperone protein (CesT) family; Region: CesT; cl08444 1335307003375 Cupin domain; Region: Cupin_2; cl17218 1335307003376 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1335307003377 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 1335307003378 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1335307003379 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1335307003380 DNA-binding site [nucleotide binding]; DNA binding site 1335307003381 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1335307003382 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1335307003383 NAD binding site [chemical binding]; other site 1335307003384 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1335307003385 putative aldolase; Validated; Region: PRK08130 1335307003386 intersubunit interface [polypeptide binding]; other site 1335307003387 active site 1335307003388 Zn2+ binding site [ion binding]; other site 1335307003389 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 1335307003390 D-galactonate transporter; Region: 2A0114; TIGR00893 1335307003391 putative substrate translocation pore; other site 1335307003392 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1335307003393 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1335307003394 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 1335307003395 putative NAD(P) binding site [chemical binding]; other site 1335307003396 active site 1335307003397 putative substrate binding site [chemical binding]; other site 1335307003398 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 1335307003399 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 1335307003400 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1335307003401 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1335307003402 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1335307003403 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1335307003404 conserved cys residue [active] 1335307003405 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307003406 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 1335307003407 dimer interface [polypeptide binding]; other site 1335307003408 conserved gate region; other site 1335307003409 putative PBP binding loops; other site 1335307003410 ABC-ATPase subunit interface; other site 1335307003411 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1335307003412 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1335307003413 Walker A/P-loop; other site 1335307003414 ATP binding site [chemical binding]; other site 1335307003415 Q-loop/lid; other site 1335307003416 ABC transporter signature motif; other site 1335307003417 Walker B; other site 1335307003418 D-loop; other site 1335307003419 H-loop/switch region; other site 1335307003420 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 1335307003421 Predicted flavoprotein [General function prediction only]; Region: COG0431 1335307003422 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1335307003423 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 1335307003424 dimerization interface [polypeptide binding]; other site 1335307003425 putative DNA binding site [nucleotide binding]; other site 1335307003426 putative Zn2+ binding site [ion binding]; other site 1335307003427 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_20; cd07254 1335307003428 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1335307003429 putative metal binding site [ion binding]; other site 1335307003430 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1335307003431 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1335307003432 active site 1335307003433 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1335307003434 arsenical-resistance protein; Region: acr3; TIGR00832 1335307003435 ribonuclease E; Reviewed; Region: rne; PRK10811 1335307003436 ribonuclease E; Reviewed; Region: rne; PRK10811 1335307003437 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 1335307003438 binding surface 1335307003439 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 1335307003440 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 1335307003441 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 1335307003442 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 1335307003443 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1335307003444 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1335307003445 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1335307003446 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1335307003447 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 1335307003448 carboxyltransferase (CT) interaction site; other site 1335307003449 biotinylation site [posttranslational modification]; other site 1335307003450 enoyl-CoA hydratase; Provisional; Region: PRK05995 1335307003451 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 1335307003452 substrate binding site [chemical binding]; other site 1335307003453 oxyanion hole (OAH) forming residues; other site 1335307003454 trimer interface [polypeptide binding]; other site 1335307003455 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1335307003456 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1335307003457 isovaleryl-CoA dehydrogenase; Region: PLN02519 1335307003458 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1335307003459 substrate binding site [chemical binding]; other site 1335307003460 FAD binding site [chemical binding]; other site 1335307003461 catalytic base [active] 1335307003462 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1335307003463 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1335307003464 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 1335307003465 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 1335307003466 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 1335307003467 Putative water exit pathway; other site 1335307003468 Binuclear center (active site) [active] 1335307003469 K-pathway; other site 1335307003470 Putative proton exit pathway; other site 1335307003471 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1335307003472 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1335307003473 Cytochrome c; Region: Cytochrom_C; pfam00034 1335307003474 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 1335307003475 [2Fe-2S] cluster binding site [ion binding]; other site 1335307003476 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 1335307003477 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 1335307003478 alpha subunit interface [polypeptide binding]; other site 1335307003479 active site 1335307003480 substrate binding site [chemical binding]; other site 1335307003481 Fe binding site [ion binding]; other site 1335307003482 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1335307003483 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1335307003484 dimer interface [polypeptide binding]; other site 1335307003485 active site 1335307003486 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1335307003487 catalytic residues [active] 1335307003488 substrate binding site [chemical binding]; other site 1335307003489 Protein of unknown function (DUF3326); Region: DUF3326; pfam11805 1335307003490 Cupin-like domain; Region: Cupin_8; pfam13621 1335307003491 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 1335307003492 benzoate transport; Region: 2A0115; TIGR00895 1335307003493 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 1335307003494 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1335307003495 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1335307003496 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1335307003497 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1335307003498 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 1335307003499 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 1335307003500 dimer interface [polypeptide binding]; other site 1335307003501 phosphorylation site [posttranslational modification] 1335307003502 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 1335307003503 ATP binding site [chemical binding]; other site 1335307003504 Mg2+ binding site [ion binding]; other site 1335307003505 G-X-G motif; other site 1335307003506 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1335307003507 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 1335307003508 active site 1335307003509 phosphorylation site [posttranslational modification] 1335307003510 intermolecular recognition site; other site 1335307003511 dimerization interface [polypeptide binding]; other site 1335307003512 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 1335307003513 DNA binding site [nucleotide binding] 1335307003514 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 1335307003515 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 1335307003516 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1335307003517 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1335307003518 Flavodoxin; Region: Flavodoxin_1; pfam00258 1335307003519 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like2; cd06201 1335307003520 FAD binding pocket [chemical binding]; other site 1335307003521 FAD binding motif [chemical binding]; other site 1335307003522 catalytic residues [active] 1335307003523 NAD binding pocket [chemical binding]; other site 1335307003524 phosphate binding motif [ion binding]; other site 1335307003525 beta-alpha-beta structure motif; other site 1335307003526 ApbE family; Region: ApbE; pfam02424 1335307003527 ApbE family; Region: ApbE; pfam02424 1335307003528 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1335307003529 aldehyde dehydrogenase family 7 member; Region: PLN02315 1335307003530 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 1335307003531 tetrameric interface [polypeptide binding]; other site 1335307003532 NAD binding site [chemical binding]; other site 1335307003533 catalytic residues [active] 1335307003534 aminotransferase A; Validated; Region: PRK07683 1335307003535 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 1335307003536 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307003537 homodimer interface [polypeptide binding]; other site 1335307003538 catalytic residue [active] 1335307003539 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 1335307003540 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1335307003541 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307003542 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 1335307003543 dimerization interface [polypeptide binding]; other site 1335307003544 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1335307003545 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1335307003546 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1335307003547 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1335307003548 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1335307003549 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1335307003550 putative active site [active] 1335307003551 catalytic site [active] 1335307003552 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 1335307003553 putative active site [active] 1335307003554 catalytic site [active] 1335307003555 PLD-like domain; Region: PLDc_2; pfam13091 1335307003556 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1335307003557 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1335307003558 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1335307003559 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 1335307003560 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1335307003561 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1335307003562 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1335307003563 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1335307003564 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1335307003565 DNA-binding site [nucleotide binding]; DNA binding site 1335307003566 FCD domain; Region: FCD; pfam07729 1335307003567 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 1335307003568 The starvation sensing protein RpsA from E.coli and its homologs are lactonizing enzymes whose putative targets are homoserine lactone (HSL)-derivative. They are part of the mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of...; Region: rpsA; cd03322 1335307003569 putative active site pocket [active] 1335307003570 putative metal binding site [ion binding]; other site 1335307003571 putative oxidoreductase; Provisional; Region: PRK10083 1335307003572 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 1335307003573 putative NAD(P) binding site [chemical binding]; other site 1335307003574 catalytic Zn binding site [ion binding]; other site 1335307003575 structural Zn binding site [ion binding]; other site 1335307003576 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 1335307003577 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1335307003578 homodimer interface [polypeptide binding]; other site 1335307003579 NAD binding pocket [chemical binding]; other site 1335307003580 ATP binding pocket [chemical binding]; other site 1335307003581 Mg binding site [ion binding]; other site 1335307003582 active-site loop [active] 1335307003583 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1335307003584 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1335307003585 hypothetical protein; Provisional; Region: PRK02399 1335307003586 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 1335307003587 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; pfam09370 1335307003588 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 1335307003589 putative hydrophobic ligand binding site [chemical binding]; other site 1335307003590 protein interface [polypeptide binding]; other site 1335307003591 gate; other site 1335307003592 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 1335307003593 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1335307003594 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1335307003595 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1335307003596 Cytochrome c; Region: Cytochrom_C; pfam00034 1335307003597 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1335307003598 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1335307003599 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1335307003600 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 1335307003601 Cu(I) binding site [ion binding]; other site 1335307003602 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1335307003603 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 1335307003604 amidase catalytic site [active] 1335307003605 Zn binding residues [ion binding]; other site 1335307003606 substrate binding site [chemical binding]; other site 1335307003607 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1335307003608 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 1335307003609 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1335307003610 trimer interface [polypeptide binding]; other site 1335307003611 Haemagglutinin; Region: HIM; pfam05662 1335307003612 YadA-like C-terminal region; Region: YadA; pfam03895 1335307003613 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1335307003614 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 1335307003615 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1335307003616 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 1335307003617 active site 1335307003618 phosphorylation site [posttranslational modification] 1335307003619 intermolecular recognition site; other site 1335307003620 dimerization interface [polypeptide binding]; other site 1335307003621 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 1335307003622 DNA binding site [nucleotide binding] 1335307003623 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 1335307003624 dimer interface [polypeptide binding]; other site 1335307003625 phosphorylation site [posttranslational modification] 1335307003626 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 1335307003627 ATP binding site [chemical binding]; other site 1335307003628 G-X-G motif; other site 1335307003629 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1335307003630 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 1335307003631 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1335307003632 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 1335307003633 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 1335307003634 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 1335307003635 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1335307003636 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 1335307003637 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 1335307003638 Walker A motif; other site 1335307003639 ATP binding site [chemical binding]; other site 1335307003640 Walker B motif; other site 1335307003641 arginine finger; other site 1335307003642 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 1335307003643 Walker A motif; other site 1335307003644 ATP binding site [chemical binding]; other site 1335307003645 Walker B motif; other site 1335307003646 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1335307003647 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 1335307003648 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1335307003649 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1335307003650 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; cl02212 1335307003651 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1335307003652 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1335307003653 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1335307003654 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1335307003655 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1335307003656 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1335307003657 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1335307003658 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1335307003659 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 1335307003660 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 1335307003661 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 1335307003662 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 1335307003663 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1335307003664 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1335307003665 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 1335307003666 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1335307003667 Bacterial Ig-like domain; Region: Big_5; pfam13205 1335307003668 Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl group of the C-terminal Gly...; Region: Peptidase_C19; cd02257 1335307003669 active site 1335307003670 GTP cyclohydrolase I; Reviewed; Region: PRK12606 1335307003671 GTP cyclohydrolase I; Provisional; Region: PLN03044 1335307003672 active site 1335307003673 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1335307003674 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307003675 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1335307003676 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 1335307003677 active site 1335307003678 phosphorylation site [posttranslational modification] 1335307003679 intermolecular recognition site; other site 1335307003680 dimerization interface [polypeptide binding]; other site 1335307003681 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 1335307003682 DNA binding residues [nucleotide binding] 1335307003683 dimerization interface [polypeptide binding]; other site 1335307003684 chaperone protein SicP; Provisional; Region: PRK15329 1335307003685 SicP binding; Region: SicP-binding; pfam09119 1335307003686 type III secretion protein BopE; Provisional; Region: PRK15278 1335307003687 SopE GEF domain; Region: SopE_GEF; pfam07487 1335307003688 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1335307003689 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 1335307003690 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1335307003691 catalytic residue [active] 1335307003692 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1335307003693 type III effector protein IpaD/SipD/SspD; Region: SipD_IpaD_SspD; TIGR02553 1335307003694 H-NS histone family; Region: Histone_HNS; pfam00816 1335307003695 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1335307003696 Salmonella-Shigella invasin protein C (IpaC_SipC); Region: IpaC_SipC; pfam09599 1335307003697 Secretion system effector C (SseC) like family; Region: SseC; pfam04888 1335307003698 chaperone protein SicA; Provisional; Region: PRK15331 1335307003699 Tetratricopeptide repeat; Region: TPR_3; pfam07720 1335307003700 Tetratricopeptide repeat; Region: TPR_3; pfam07720 1335307003701 type III secretion system protein SpaS; Validated; Region: PRK08156 1335307003702 type III secretion protein SpaR/YscT/HrcT; Region: fliR_like_III; TIGR01401 1335307003703 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 1335307003704 type III secretion system protein SpaP; Provisional; Region: spaP; PRK12796 1335307003705 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 1335307003706 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1335307003707 ATP synthase SpaL; Validated; Region: PRK08149 1335307003708 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1335307003709 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 1335307003710 Walker A motif; other site 1335307003711 ATP binding site [chemical binding]; other site 1335307003712 Walker B motif; other site 1335307003713 Invasion protein B family; Region: Invas_SpaK; cl04129 1335307003714 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 1335307003715 type III secretion system protein InvA; Provisional; Region: PRK15337 1335307003716 type III secretion regulator YopN/LcrE/InvE/MxiC; Region: LcrE; TIGR02568 1335307003717 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1335307003718 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1335307003719 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 1335307003720 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1335307003721 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1335307003722 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307003723 type III secretion system needle complex protein PrgH; Provisional; Region: PRK15327; cl12363 1335307003724 Type III secretion system protein PrgH-EprH (PrgH); Region: PrgH; pfam09480 1335307003725 Type III secretion needle MxiH like; Region: MxiH; cl09641 1335307003726 type III secretion system needle complex protein PrgJ; Provisional; Region: PRK15325 1335307003727 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1335307003728 type III secretion apparatus protein OrgA/MxiK; Region: OrgA_MxiK; TIGR02555 1335307003729 type III secretion apparatus protein, HrpE/YscL family; Region: HrpE_YscL_not; TIGR02499 1335307003730 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 1335307003731 DNA binding site [nucleotide binding] 1335307003732 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 1335307003733 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 1335307003734 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1335307003735 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 1335307003736 active site 1335307003737 Zn binding site [ion binding]; other site 1335307003738 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1335307003739 MarR family; Region: MarR_2; cl17246 1335307003740 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 1335307003741 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1335307003742 dimer interface [polypeptide binding]; other site 1335307003743 putative metal binding site [ion binding]; other site 1335307003744 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 1335307003745 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 1335307003746 active site 1335307003747 DNA binding site [nucleotide binding] 1335307003748 Int/Topo IB signature motif; other site 1335307003749 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 1335307003750 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1335307003751 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1335307003752 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 1335307003753 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1335307003754 Integrase core domain; Region: rve_3; pfam13683 1335307003755 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1335307003756 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1335307003757 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1335307003758 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 1335307003759 DNA-binding interface [nucleotide binding]; DNA binding site 1335307003760 ferric uptake regulator; Provisional; Region: fur; PRK09462 1335307003761 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1335307003762 metal binding site 2 [ion binding]; metal-binding site 1335307003763 putative DNA binding helix; other site 1335307003764 metal binding site 1 [ion binding]; metal-binding site 1335307003765 dimer interface [polypeptide binding]; other site 1335307003766 structural Zn2+ binding site [ion binding]; other site 1335307003767 dihydroorotase; Validated; Region: PRK09060 1335307003768 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 1335307003769 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 1335307003770 active site 1335307003771 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1335307003772 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 1335307003773 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1335307003774 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 1335307003775 active site 1335307003776 dimer interface [polypeptide binding]; other site 1335307003777 motif 1; other site 1335307003778 motif 2; other site 1335307003779 motif 3; other site 1335307003780 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 1335307003781 anticodon binding site; other site 1335307003782 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 1335307003783 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1335307003784 Gamma carbonic anhydrases (CA): Carbonic anhydrases are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism, involving the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide, followed...; Region: LbH_gamma_CA; cd00710 1335307003785 trimer interface [polypeptide binding]; other site 1335307003786 active site 1335307003787 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1335307003788 Sodium Bile acid symporter family; Region: SBF; cl17470 1335307003789 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 1335307003790 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1335307003791 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1335307003792 Haemolytic domain; Region: Haemolytic; pfam01809 1335307003793 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1335307003794 tRNA synthetases class I (C) catalytic domain; Region: tRNA-synt_1e; pfam01406 1335307003795 active site 1335307003796 HIGH motif; other site 1335307003797 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1335307003798 KMSKS motif; other site 1335307003799 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1335307003800 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 1335307003801 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1335307003802 putative GTP cyclohydrolase; Provisional; Region: PRK13674 1335307003803 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1335307003804 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 1335307003805 P-loop, Walker A motif; other site 1335307003806 Base recognition motif; other site 1335307003807 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1335307003808 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1335307003809 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1335307003810 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1335307003811 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 1335307003812 metal binding site 2 [ion binding]; metal-binding site 1335307003813 putative DNA binding helix; other site 1335307003814 metal binding site 1 [ion binding]; metal-binding site 1335307003815 dimer interface [polypeptide binding]; other site 1335307003816 structural Zn2+ binding site [ion binding]; other site 1335307003817 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1335307003818 Integrase core domain; Region: rve; pfam00665 1335307003819 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 1335307003820 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 1335307003821 Walker A motif; other site 1335307003822 ATP binding site [chemical binding]; other site 1335307003823 Walker B motif; other site 1335307003824 arginine finger; other site 1335307003825 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 1335307003826 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 1335307003827 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 1335307003828 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1335307003829 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1335307003830 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1335307003831 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 1335307003832 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1335307003833 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 1335307003834 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307003835 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307003836 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 1335307003837 dimerization interface [polypeptide binding]; other site 1335307003838 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 1335307003839 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 1335307003840 phosphate binding site [ion binding]; other site 1335307003841 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 1335307003842 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 1335307003843 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 1335307003844 peptidase domain interface [polypeptide binding]; other site 1335307003845 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 1335307003846 active site 1335307003847 catalytic triad [active] 1335307003848 calcium binding site [ion binding]; other site 1335307003849 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1335307003850 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1335307003851 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 1335307003852 putative DNA binding site [nucleotide binding]; other site 1335307003853 putative Zn2+ binding site [ion binding]; other site 1335307003854 AsnC family; Region: AsnC_trans_reg; pfam01037 1335307003855 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 1335307003856 putative hydrophobic ligand binding site [chemical binding]; other site 1335307003857 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1335307003858 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1335307003859 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 1335307003860 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 1335307003861 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1335307003862 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1335307003863 acyl-activating enzyme (AAE) consensus motif; other site 1335307003864 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_6; cd05922 1335307003865 putative AMP binding site [chemical binding]; other site 1335307003866 putative active site [active] 1335307003867 acyl-activating enzyme (AAE) consensus motif; other site 1335307003868 putative CoA binding site [chemical binding]; other site 1335307003869 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1335307003870 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 1335307003871 DNA binding residues [nucleotide binding] 1335307003872 dimerization interface [polypeptide binding]; other site 1335307003873 Autoinducer synthetase; Region: Autoind_synth; cl17404 1335307003874 Old yellow enzyme (OYE)-related FMN binding domain, group 2. 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_2_FMN; cd04733 1335307003875 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1335307003876 putative active site [active] 1335307003877 putative FMN binding site [chemical binding]; other site 1335307003878 putative substrate binding site [chemical binding]; other site 1335307003879 putative catalytic residue [active] 1335307003880 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1335307003881 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 1335307003882 dimer interface [polypeptide binding]; other site 1335307003883 conserved gate region; other site 1335307003884 putative PBP binding loops; other site 1335307003885 ABC-ATPase subunit interface; other site 1335307003886 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1335307003887 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 1335307003888 Walker A/P-loop; other site 1335307003889 ATP binding site [chemical binding]; other site 1335307003890 Q-loop/lid; other site 1335307003891 ABC transporter signature motif; other site 1335307003892 Walker B; other site 1335307003893 D-loop; other site 1335307003894 H-loop/switch region; other site 1335307003895 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 1335307003896 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 1335307003897 substrate binding pocket [chemical binding]; other site 1335307003898 membrane-bound complex binding site; other site 1335307003899 hinge residues; other site 1335307003900 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1335307003901 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 1335307003902 active site 1335307003903 iron coordination sites [ion binding]; other site 1335307003904 substrate binding pocket [chemical binding]; other site 1335307003905 cellulose synthase operon protein YhjU; Region: cellulose_yhjU; TIGR03368 1335307003906 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 1335307003907 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 1335307003908 DXD motif; other site 1335307003909 PilZ domain; Region: PilZ; pfam07238 1335307003910 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 1335307003911 cellulose biosynthesis protein BcsE; Region: cellulose_bcsE; TIGR03369 1335307003912 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 1335307003913 endo-1,4-D-glucanase; Provisional; Region: PRK11097 1335307003914 cellulose synthase regulator protein; Provisional; Region: PRK11114 1335307003915 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 1335307003916 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1335307003917 non-specific DNA binding site [nucleotide binding]; other site 1335307003918 salt bridge; other site 1335307003919 sequence-specific DNA binding site [nucleotide binding]; other site 1335307003920 HipA N-terminal domain; Region: couple_hipA; TIGR03071 1335307003921 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 1335307003922 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1335307003923 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1335307003924 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307003925 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307003926 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 1335307003927 dimerization interface [polypeptide binding]; other site 1335307003928 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1335307003929 agmatinase; Region: agmatinase; TIGR01230 1335307003930 oligomer interface [polypeptide binding]; other site 1335307003931 putative active site [active] 1335307003932 Mn binding site [ion binding]; other site 1335307003933 type II secretion system protein D; Region: type_II_gspD; TIGR02517 1335307003934 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1335307003935 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1335307003936 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1335307003937 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 1335307003938 PilM; Region: PilM; pfam07419 1335307003939 PilS N terminal; Region: PilS; pfam08805 1335307003940 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1335307003941 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1335307003942 Type II/IV secretion system protein; Region: T2SE; pfam00437 1335307003943 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 1335307003944 Walker A motif; other site 1335307003945 ATP binding site [chemical binding]; other site 1335307003946 Walker B motif; other site 1335307003947 type IV pilus biogenesis protein PilP; Region: pilP_fam; TIGR03021 1335307003948 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 1335307003949 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1335307003950 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 1335307003951 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 1335307003952 Walker A motif; other site 1335307003953 ATP binding site [chemical binding]; other site 1335307003954 Walker B motif; other site 1335307003955 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 1335307003956 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1335307003957 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 1335307003958 active site 1335307003959 phosphorylation site [posttranslational modification] 1335307003960 intermolecular recognition site; other site 1335307003961 dimerization interface [polypeptide binding]; other site 1335307003962 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 1335307003963 DNA binding site [nucleotide binding] 1335307003964 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1335307003965 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 1335307003966 ATP binding site [chemical binding]; other site 1335307003967 Mg2+ binding site [ion binding]; other site 1335307003968 G-X-G motif; other site 1335307003969 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; pfam09613 1335307003970 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1335307003971 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1335307003972 Tir chaperone protein (CesT) family; Region: CesT; cl08444 1335307003973 Type III secretory pathway, component EscS [Intracellular trafficking and secretion]; Region: EscS; COG4794 1335307003974 type III secretion system protein YscR; Provisional; Region: PRK12797 1335307003975 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 1335307003976 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1335307003977 Type III secretion protein (HpaP); Region: HpaP; cl17849 1335307003978 type III secretion protein, HrcV family; Region: hrcV; TIGR01399 1335307003979 FHIPEP family; Region: FHIPEP; pfam00771 1335307003980 type III secretion system protein HrcU; Validated; Region: PRK09108 1335307003981 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1335307003982 type III secretion protein HrpB1/HrpK; Region: HrpB1_HrpK; TIGR02561 1335307003983 Bacterial type III secretion protein (HrpB2); Region: HrpB2; cl09721 1335307003984 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1335307003985 type III secretion protein HrpB4; Region: HrpB4; TIGR02560 1335307003986 Bacterial type III secretion protein (HrpB4); Region: HrpB4; pfam09502 1335307003987 type III secretion system protein HrpB; Validated; Region: PRK09098 1335307003988 Flagellar assembly protein FliH; Region: FliH; pfam02108 1335307003989 type III secretion system ATPase; Provisional; Region: PRK09099 1335307003990 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 1335307003991 Walker A motif; other site 1335307003992 ATP binding site [chemical binding]; other site 1335307003993 Walker B motif; other site 1335307003994 type III secretion protein HrpB7; Region: HrpB7; TIGR02559 1335307003995 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 1335307003996 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; cl00184 1335307003997 substrate binding pocket [chemical binding]; other site 1335307003998 active site 1335307003999 iron coordination sites [ion binding]; other site 1335307004000 Condensation domain; Region: Condensation; pfam00668 1335307004001 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1335307004002 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1335307004003 acyl-activating enzyme (AAE) consensus motif; other site 1335307004004 AMP binding site [chemical binding]; other site 1335307004005 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307004006 Condensation domain; Region: Condensation; pfam00668 1335307004007 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1335307004008 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1335307004009 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1335307004010 acyl-activating enzyme (AAE) consensus motif; other site 1335307004011 AMP binding site [chemical binding]; other site 1335307004012 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307004013 Condensation domain; Region: Condensation; pfam00668 1335307004014 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1335307004015 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1335307004016 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1335307004017 acyl-activating enzyme (AAE) consensus motif; other site 1335307004018 AMP binding site [chemical binding]; other site 1335307004019 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307004020 Condensation domain; Region: Condensation; pfam00668 1335307004021 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1335307004022 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1335307004023 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1335307004024 acyl-activating enzyme (AAE) consensus motif; other site 1335307004025 AMP binding site [chemical binding]; other site 1335307004026 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307004027 Condensation domain; Region: Condensation; pfam00668 1335307004028 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1335307004029 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1335307004030 acyl-activating enzyme (AAE) consensus motif; other site 1335307004031 AMP binding site [chemical binding]; other site 1335307004032 active site 1335307004033 CoA binding site [chemical binding]; other site 1335307004034 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307004035 Condensation domain; Region: Condensation; pfam00668 1335307004036 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1335307004037 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1335307004038 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 1335307004039 acyl-activating enzyme (AAE) consensus motif; other site 1335307004040 AMP binding site [chemical binding]; other site 1335307004041 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307004042 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 1335307004043 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 1335307004044 Condensation domain; Region: Condensation; pfam00668 1335307004045 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1335307004046 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1335307004047 acyl-activating enzyme (AAE) consensus motif; other site 1335307004048 AMP binding site [chemical binding]; other site 1335307004049 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307004050 Condensation domain; Region: Condensation; pfam00668 1335307004051 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1335307004052 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1335307004053 acyl-activating enzyme (AAE) consensus motif; other site 1335307004054 AMP binding site [chemical binding]; other site 1335307004055 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307004056 Condensation domain; Region: Condensation; pfam00668 1335307004057 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1335307004058 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1335307004059 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1335307004060 acyl-activating enzyme (AAE) consensus motif; other site 1335307004061 AMP binding site [chemical binding]; other site 1335307004062 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307004063 Condensation domain; Region: Condensation; pfam00668 1335307004064 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1335307004065 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1335307004066 acyl-activating enzyme (AAE) consensus motif; other site 1335307004067 AMP binding site [chemical binding]; other site 1335307004068 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307004069 Condensation domain; Region: Condensation; pfam00668 1335307004070 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1335307004071 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1335307004072 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1335307004073 acyl-activating enzyme (AAE) consensus motif; other site 1335307004074 AMP binding site [chemical binding]; other site 1335307004075 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307004076 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 1335307004077 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 1335307004078 inhibitor-cofactor binding pocket; inhibition site 1335307004079 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307004080 catalytic residue [active] 1335307004081 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 1335307004082 putative substrate translocation pore; other site 1335307004083 pyruvate dehydrogenase; Provisional; Region: PRK09124 1335307004084 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1335307004085 PYR/PP interface [polypeptide binding]; other site 1335307004086 tetramer interface [polypeptide binding]; other site 1335307004087 dimer interface [polypeptide binding]; other site 1335307004088 TPP binding site [chemical binding]; other site 1335307004089 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1335307004090 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 1335307004091 TPP-binding site [chemical binding]; other site 1335307004092 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 1335307004093 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1335307004094 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1335307004095 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 1335307004096 putative active site [active] 1335307004097 putative catalytic site [active] 1335307004098 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1335307004099 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307004100 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307004101 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1335307004102 putative dimerization interface [polypeptide binding]; other site 1335307004103 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307004104 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307004105 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 1335307004106 putative effector binding pocket; other site 1335307004107 dimerization interface [polypeptide binding]; other site 1335307004108 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 1335307004109 putative substrate translocation pore; other site 1335307004110 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 1335307004111 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 1335307004112 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 1335307004113 ATP binding site [chemical binding]; other site 1335307004114 Mg2+ binding site [ion binding]; other site 1335307004115 G-X-G motif; other site 1335307004116 Uncharacterized conserved protein [Function unknown]; Region: COG3287 1335307004117 FIST N domain; Region: FIST; pfam08495 1335307004118 FIST C domain; Region: FIST_C; pfam10442 1335307004119 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1335307004120 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 1335307004121 active site 1335307004122 phosphorylation site [posttranslational modification] 1335307004123 intermolecular recognition site; other site 1335307004124 dimerization interface [polypeptide binding]; other site 1335307004125 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1335307004126 Zn2+ binding site [ion binding]; other site 1335307004127 Mg2+ binding site [ion binding]; other site 1335307004128 Ricin-type beta-trefoil; Region: RICIN; smart00458 1335307004129 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 1335307004130 putative sugar binding sites [chemical binding]; other site 1335307004131 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 1335307004132 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 1335307004133 putative sugar binding sites [chemical binding]; other site 1335307004134 Q-X-W motif; other site 1335307004135 Kelch motif; Region: Kelch_6; pfam13964 1335307004136 C-terminal Early set domain associated with the catalytic domain of galactose oxidase; Region: E_set_GO_C; cd02851 1335307004137 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 1335307004138 Cu(I) binding site [ion binding]; other site 1335307004139 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1335307004140 active site 1335307004141 nucleophile elbow; other site 1335307004142 benzoate transport; Region: 2A0115; TIGR00895 1335307004143 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 1335307004144 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1335307004145 Cytochrome P450; Region: p450; cl12078 1335307004146 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1335307004147 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 1335307004148 FMN-binding pocket [chemical binding]; other site 1335307004149 flavin binding motif; other site 1335307004150 phosphate binding motif [ion binding]; other site 1335307004151 beta-alpha-beta structure motif; other site 1335307004152 NAD binding pocket [chemical binding]; other site 1335307004153 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 1335307004154 catalytic loop [active] 1335307004155 iron binding site [ion binding]; other site 1335307004156 H+ Antiporter protein; Region: 2A0121; TIGR00900 1335307004157 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 1335307004158 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 1335307004159 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1335307004160 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 1335307004161 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1335307004162 Amidase; Region: Amidase; pfam01425 1335307004163 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 1335307004164 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1335307004165 G1 box; other site 1335307004166 putative GEF interaction site [polypeptide binding]; other site 1335307004167 GTP/Mg2+ binding site [chemical binding]; other site 1335307004168 Switch I region; other site 1335307004169 G2 box; other site 1335307004170 G3 box; other site 1335307004171 Switch II region; other site 1335307004172 G4 box; other site 1335307004173 G5 box; other site 1335307004174 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 1335307004175 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 1335307004176 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1335307004177 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1335307004178 selenocysteine synthase; Provisional; Region: PRK04311 1335307004179 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1335307004180 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1335307004181 catalytic residue [active] 1335307004182 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1335307004183 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 1335307004184 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 1335307004185 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1335307004186 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1335307004187 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1335307004188 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 1335307004189 molybdopterin cofactor binding site; other site 1335307004190 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 1335307004191 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 1335307004192 molybdopterin cofactor binding site; other site 1335307004193 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 1335307004194 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1335307004195 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1335307004196 putative active site [active] 1335307004197 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 1335307004198 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1335307004199 substrate binding pocket [chemical binding]; other site 1335307004200 membrane-bound complex binding site; other site 1335307004201 hinge residues; other site 1335307004202 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 1335307004203 dimer interface [polypeptide binding]; other site 1335307004204 conserved gate region; other site 1335307004205 putative PBP binding loops; other site 1335307004206 ABC-ATPase subunit interface; other site 1335307004207 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1335307004208 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1335307004209 Walker A/P-loop; other site 1335307004210 ATP binding site [chemical binding]; other site 1335307004211 Q-loop/lid; other site 1335307004212 ABC transporter signature motif; other site 1335307004213 Walker B; other site 1335307004214 D-loop; other site 1335307004215 H-loop/switch region; other site 1335307004216 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1335307004217 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1335307004218 active site 1335307004219 non-prolyl cis peptide bond; other site 1335307004220 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1335307004221 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1335307004222 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 1335307004223 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1335307004224 substrate binding pocket [chemical binding]; other site 1335307004225 membrane-bound complex binding site; other site 1335307004226 hinge residues; other site 1335307004227 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1335307004228 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 1335307004229 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 1335307004230 putative active site [active] 1335307004231 Zn binding site [ion binding]; other site 1335307004232 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1335307004233 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307004234 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307004235 trimer interface [polypeptide binding]; other site 1335307004236 eyelet of channel; other site 1335307004237 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1335307004238 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1335307004239 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1335307004240 active site 1335307004241 tetramer interface; other site 1335307004242 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1335307004243 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1335307004244 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 1335307004245 putative ADP-binding pocket [chemical binding]; other site 1335307004246 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 1335307004247 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1335307004248 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1335307004249 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1335307004250 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1335307004251 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1335307004252 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1335307004253 NADP-binding site; other site 1335307004254 homotetramer interface [polypeptide binding]; other site 1335307004255 substrate binding site [chemical binding]; other site 1335307004256 homodimer interface [polypeptide binding]; other site 1335307004257 active site 1335307004258 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1335307004259 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307004260 NAD(P) binding site [chemical binding]; other site 1335307004261 active site 1335307004262 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 1335307004263 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 1335307004264 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 1335307004265 homodimer interface [polypeptide binding]; other site 1335307004266 substrate-cofactor binding pocket; other site 1335307004267 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307004268 catalytic residue [active] 1335307004269 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1335307004270 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 1335307004271 active site 1335307004272 tetramer interface [polypeptide binding]; other site 1335307004273 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1335307004274 active site 1335307004275 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1335307004276 Colicin V production protein; Region: Colicin_V; pfam02674 1335307004277 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1335307004278 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1335307004279 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1335307004280 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1335307004281 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1335307004282 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1335307004283 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 1335307004284 substrate binding site [chemical binding]; other site 1335307004285 active site 1335307004286 catalytic residues [active] 1335307004287 heterodimer interface [polypeptide binding]; other site 1335307004288 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1335307004289 DNA methylase; Region: N6_N4_Mtase; pfam01555 1335307004290 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1335307004291 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 1335307004292 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307004293 catalytic residue [active] 1335307004294 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 1335307004295 active site 1335307004296 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1335307004297 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1335307004298 dimerization interface 3.5A [polypeptide binding]; other site 1335307004299 active site 1335307004300 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 1335307004301 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1335307004302 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1335307004303 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1335307004304 tartrate dehydrogenase; Region: TTC; TIGR02089 1335307004305 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1335307004306 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 1335307004307 substrate binding site [chemical binding]; other site 1335307004308 Predicted small secreted protein [Function unknown]; Region: COG5510 1335307004309 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1335307004310 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1335307004311 substrate binding site [chemical binding]; other site 1335307004312 ligand binding site [chemical binding]; other site 1335307004313 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1335307004314 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1335307004315 active site 1335307004316 non-prolyl cis peptide bond; other site 1335307004317 cyclase homology domain; Region: CHD; cd07302 1335307004318 nucleotidyl binding site; other site 1335307004319 metal binding site [ion binding]; metal-binding site 1335307004320 dimer interface [polypeptide binding]; other site 1335307004321 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1335307004322 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 1335307004323 putative DNA binding site [nucleotide binding]; other site 1335307004324 putative Zn2+ binding site [ion binding]; other site 1335307004325 AsnC family; Region: AsnC_trans_reg; pfam01037 1335307004326 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 1335307004327 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 1335307004328 dimer interface [polypeptide binding]; other site 1335307004329 TPP-binding site [chemical binding]; other site 1335307004330 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 1335307004331 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 1335307004332 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 1335307004333 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1335307004334 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1335307004335 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1335307004336 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 1335307004337 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1335307004338 dimer interface [polypeptide binding]; other site 1335307004339 active site 1335307004340 citrylCoA binding site [chemical binding]; other site 1335307004341 NADH binding [chemical binding]; other site 1335307004342 cationic pore residues; other site 1335307004343 oxalacetate/citrate binding site [chemical binding]; other site 1335307004344 coenzyme A binding site [chemical binding]; other site 1335307004345 catalytic triad [active] 1335307004346 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1335307004347 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1335307004348 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 1335307004349 L-aspartate oxidase; Provisional; Region: PRK06175 1335307004350 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1335307004351 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 1335307004352 SdhC subunit interface [polypeptide binding]; other site 1335307004353 proximal heme binding site [chemical binding]; other site 1335307004354 cardiolipin binding site; other site 1335307004355 Iron-sulfur protein interface; other site 1335307004356 proximal quinone binding site [chemical binding]; other site 1335307004357 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 1335307004358 Iron-sulfur protein interface; other site 1335307004359 proximal quinone binding site [chemical binding]; other site 1335307004360 SdhD (CybS) interface [polypeptide binding]; other site 1335307004361 proximal heme binding site [chemical binding]; other site 1335307004362 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1335307004363 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1335307004364 DNA-binding site [nucleotide binding]; DNA binding site 1335307004365 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1335307004366 malate dehydrogenase; Provisional; Region: PRK05442 1335307004367 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 1335307004368 NAD(P) binding site [chemical binding]; other site 1335307004369 dimer interface [polypeptide binding]; other site 1335307004370 malate binding site [chemical binding]; other site 1335307004371 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1335307004372 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 1335307004373 2-methylcitrate dehydratase; Region: prpD; TIGR02330 1335307004374 aconitate hydratase; Provisional; Region: acnA; PRK12881 1335307004375 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1335307004376 substrate binding site [chemical binding]; other site 1335307004377 ligand binding site [chemical binding]; other site 1335307004378 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 1335307004379 substrate binding site [chemical binding]; other site 1335307004380 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1335307004381 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1335307004382 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1335307004383 Inositol polyphosphate kinase; Region: IPK; cl12283 1335307004384 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1335307004385 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1335307004386 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1335307004387 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1335307004388 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1335307004389 Cytochrome c [Energy production and conversion]; Region: COG3258 1335307004390 Cytochrome c; Region: Cytochrom_C; pfam00034 1335307004391 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 1335307004392 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 1335307004393 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 1335307004394 peptidase domain interface [polypeptide binding]; other site 1335307004395 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 1335307004396 active site 1335307004397 catalytic triad [active] 1335307004398 calcium binding site [ion binding]; other site 1335307004399 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1335307004400 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 1335307004401 putative PBP binding loops; other site 1335307004402 dimer interface [polypeptide binding]; other site 1335307004403 ABC-ATPase subunit interface; other site 1335307004404 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 1335307004405 dimer interface [polypeptide binding]; other site 1335307004406 conserved gate region; other site 1335307004407 putative PBP binding loops; other site 1335307004408 ABC-ATPase subunit interface; other site 1335307004409 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1335307004410 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1335307004411 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1335307004412 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307004413 Walker A/P-loop; other site 1335307004414 ATP binding site [chemical binding]; other site 1335307004415 Q-loop/lid; other site 1335307004416 ABC transporter signature motif; other site 1335307004417 Walker B; other site 1335307004418 D-loop; other site 1335307004419 H-loop/switch region; other site 1335307004420 TOBE domain; Region: TOBE_2; pfam08402 1335307004421 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 1335307004422 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1335307004423 DNA-binding site [nucleotide binding]; DNA binding site 1335307004424 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 1335307004425 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307004426 homodimer interface [polypeptide binding]; other site 1335307004427 catalytic residue [active] 1335307004428 lipase chaperone; Provisional; Region: PRK01294 1335307004429 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 1335307004430 Lipase (class 2); Region: Lipase_2; pfam01674 1335307004431 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1335307004432 PGAP1-like protein; Region: PGAP1; pfam07819 1335307004433 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 1335307004434 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1335307004435 N-terminal plug; other site 1335307004436 ligand-binding site [chemical binding]; other site 1335307004437 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1335307004438 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1335307004439 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1335307004440 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 1335307004441 E3 interaction surface; other site 1335307004442 lipoyl attachment site [posttranslational modification]; other site 1335307004443 Cupin domain; Region: Cupin_2; cl17218 1335307004444 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 1335307004445 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1335307004446 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 1335307004447 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1335307004448 Protein of unknown function (DUF938); Region: DUF938; pfam06080 1335307004449 NAD-dependent deacetylase; Provisional; Region: PRK05333 1335307004450 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 1335307004451 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1335307004452 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1335307004453 HTH-like domain; Region: HTH_21; pfam13276 1335307004454 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1335307004455 Integrase core domain; Region: rve; pfam00665 1335307004456 Integrase core domain; Region: rve_3; pfam13683 1335307004457 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1335307004458 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1335307004459 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1335307004460 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 1335307004461 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1335307004462 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1335307004463 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1335307004464 Integrase core domain; Region: rve; pfam00665 1335307004465 Integrase core domain; Region: rve_3; pfam13683 1335307004466 Transposase; Region: HTH_Tnp_1; pfam01527 1335307004467 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 1335307004468 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1335307004469 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 1335307004470 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 1335307004471 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 1335307004472 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1335307004473 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1335307004474 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1335307004475 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1335307004476 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1335307004477 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1335307004478 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 1335307004479 active site 1335307004480 phosphorylation site [posttranslational modification] 1335307004481 intermolecular recognition site; other site 1335307004482 dimerization interface [polypeptide binding]; other site 1335307004483 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 1335307004484 DNA binding site [nucleotide binding] 1335307004485 Integrase core domain; Region: rve; pfam00665 1335307004486 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1335307004487 Integrase core domain; Region: rve_3; pfam13683 1335307004488 Transposase; Region: HTH_Tnp_1; pfam01527 1335307004489 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1335307004490 Integrase core domain; Region: rve; pfam00665 1335307004491 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1335307004492 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1335307004493 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 1335307004494 protein binding site [polypeptide binding]; other site 1335307004495 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 1335307004496 protein binding site [polypeptide binding]; other site 1335307004497 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1335307004498 SapC; Region: SapC; pfam07277 1335307004499 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1335307004500 Surface antigen; Region: Bac_surface_Ag; pfam01103 1335307004501 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1335307004502 H-NS histone family; Region: Histone_HNS; pfam00816 1335307004503 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1335307004504 Transposase; Region: HTH_Tnp_1; pfam01527 1335307004505 Transposase; Region: HTH_Tnp_1; pfam01527 1335307004506 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1335307004507 Integrase core domain; Region: rve; pfam00665 1335307004508 Integrase core domain; Region: rve_3; pfam13683 1335307004509 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1335307004510 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1335307004511 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1335307004512 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1335307004513 putative active site [active] 1335307004514 putative NTP binding site [chemical binding]; other site 1335307004515 putative nucleic acid binding site [nucleotide binding]; other site 1335307004516 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1335307004517 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1335307004518 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1335307004519 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1335307004520 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1335307004521 Helix-turn-helix; Region: HTH_3; pfam01381 1335307004522 Integrase core domain; Region: rve; pfam00665 1335307004523 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1335307004524 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 1335307004525 DNA-binding interface [nucleotide binding]; DNA binding site 1335307004526 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1335307004527 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1335307004528 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1335307004529 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1335307004530 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1335307004531 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1335307004532 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 1335307004533 DNA binding residues [nucleotide binding] 1335307004534 DNA primase; Validated; Region: dnaG; PRK05667 1335307004535 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1335307004536 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1335307004537 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 1335307004538 active site 1335307004539 metal binding site [ion binding]; metal-binding site 1335307004540 interdomain interaction site; other site 1335307004541 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1335307004542 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 1335307004543 Yqey-like protein; Region: YqeY; pfam09424 1335307004544 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1335307004545 Predicted flavoproteins [General function prediction only]; Region: COG2081 1335307004546 UGMP family protein; Validated; Region: PRK09604 1335307004547 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1335307004548 putative GTP cyclohydrolase; Provisional; Region: PRK13674 1335307004549 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1335307004550 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 1335307004551 TPP-binding site; other site 1335307004552 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 1335307004553 PYR/PP interface [polypeptide binding]; other site 1335307004554 dimer interface [polypeptide binding]; other site 1335307004555 TPP binding site [chemical binding]; other site 1335307004556 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1335307004557 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1335307004558 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1335307004559 substrate binding pocket [chemical binding]; other site 1335307004560 chain length determination region; other site 1335307004561 substrate-Mg2+ binding site; other site 1335307004562 catalytic residues [active] 1335307004563 aspartate-rich region 1; other site 1335307004564 active site lid residues [active] 1335307004565 aspartate-rich region 2; other site 1335307004566 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1335307004567 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1335307004568 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 1335307004569 [2Fe-2S] cluster binding site [ion binding]; other site 1335307004570 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 1335307004571 alpha subunit interface [polypeptide binding]; other site 1335307004572 active site 1335307004573 substrate binding site [chemical binding]; other site 1335307004574 Fe binding site [ion binding]; other site 1335307004575 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1335307004576 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 1335307004577 active site residue [active] 1335307004578 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 1335307004579 active site residue [active] 1335307004580 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1335307004581 Predicted membrane protein [Function unknown]; Region: COG4655 1335307004582 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 1335307004583 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1335307004584 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1335307004585 DNA polymerase I; Provisional; Region: PRK05755 1335307004586 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1335307004587 active site 1335307004588 metal binding site 1 [ion binding]; metal-binding site 1335307004589 putative 5' ssDNA interaction site; other site 1335307004590 metal binding site 3; metal-binding site 1335307004591 metal binding site 2 [ion binding]; metal-binding site 1335307004592 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1335307004593 putative DNA binding site [nucleotide binding]; other site 1335307004594 putative metal binding site [ion binding]; other site 1335307004595 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 1335307004596 active site 1335307004597 catalytic site [active] 1335307004598 substrate binding site [chemical binding]; other site 1335307004599 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1335307004600 active site 1335307004601 DNA binding site [nucleotide binding] 1335307004602 catalytic site [active] 1335307004603 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1335307004604 Uncharacterized conserved protein [Function unknown]; Region: COG1683 1335307004605 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 1335307004606 Phage-related protein [Function unknown]; Region: COG4695; cl01923 1335307004607 AMP nucleosidase; Provisional; Region: PRK08292 1335307004608 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1335307004609 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1335307004610 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 1335307004611 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1335307004612 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 1335307004613 putative active site [active] 1335307004614 putative substrate binding site [chemical binding]; other site 1335307004615 ATP binding site [chemical binding]; other site 1335307004616 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1335307004617 MarR family; Region: MarR; pfam01047 1335307004618 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1335307004619 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 1335307004620 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 1335307004621 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1335307004622 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1335307004623 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 1335307004624 putative PBP binding loops; other site 1335307004625 dimer interface [polypeptide binding]; other site 1335307004626 ABC-ATPase subunit interface; other site 1335307004627 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307004628 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1335307004629 Walker A/P-loop; other site 1335307004630 ATP binding site [chemical binding]; other site 1335307004631 Q-loop/lid; other site 1335307004632 ABC transporter signature motif; other site 1335307004633 Walker B; other site 1335307004634 D-loop; other site 1335307004635 H-loop/switch region; other site 1335307004636 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 1335307004637 molybdenum-pterin binding domain; Region: Mop; TIGR00638 1335307004638 TOBE domain; Region: TOBE; cl01440 1335307004639 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 1335307004640 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 1335307004641 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 1335307004642 dimer interface [polypeptide binding]; other site 1335307004643 hexamer interface [polypeptide binding]; other site 1335307004644 active site 2 [active] 1335307004645 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307004646 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 1335307004647 dimerization interface [polypeptide binding]; other site 1335307004648 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1335307004649 EamA-like transporter family; Region: EamA; pfam00892 1335307004650 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1335307004651 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 1335307004652 dimer interface [polypeptide binding]; other site 1335307004653 phosphorylation site [posttranslational modification] 1335307004654 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1335307004655 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1335307004656 Domain of unknown function DUF21; Region: DUF21; pfam01595 1335307004657 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 1335307004658 Transporter associated domain; Region: CorC_HlyC; smart01091 1335307004659 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 1335307004660 thiamine phosphate binding site [chemical binding]; other site 1335307004661 active site 1335307004662 pyrophosphate binding site [ion binding]; other site 1335307004663 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 1335307004664 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1335307004665 active site 1335307004666 catalytic site [active] 1335307004667 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1335307004668 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 1335307004669 S-adenosylmethionine binding site [chemical binding]; other site 1335307004670 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 1335307004671 putative deacylase active site [active] 1335307004672 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 1335307004673 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1335307004674 phosphate binding site [ion binding]; other site 1335307004675 Homeodomain-like domain; Region: HTH_23; pfam13384 1335307004676 Winged helix-turn helix; Region: HTH_29; pfam13551 1335307004677 Winged helix-turn helix; Region: HTH_33; pfam13592 1335307004678 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1335307004679 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1335307004680 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1335307004681 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307004682 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1335307004683 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1335307004684 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1335307004685 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 1335307004686 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 1335307004687 active site 1335307004688 catalytic residues [active] 1335307004689 metal binding site [ion binding]; metal-binding site 1335307004690 DmpG-like communication domain; Region: DmpG_comm; pfam07836 1335307004691 acetaldehyde dehydrogenase (acetylating); Region: ac_ald_DH_ac; TIGR03215 1335307004692 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1335307004693 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 1335307004694 Thioesterase domain; Region: Thioesterase; pfam00975 1335307004695 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1335307004696 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 1335307004697 homodimer interface [polypeptide binding]; other site 1335307004698 substrate-cofactor binding pocket; other site 1335307004699 catalytic residue [active] 1335307004700 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1335307004701 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1335307004702 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1335307004703 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307004704 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1335307004705 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1335307004706 acyl-activating enzyme (AAE) consensus motif; other site 1335307004707 AMP binding site [chemical binding]; other site 1335307004708 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 1335307004709 dimerization interface [polypeptide binding]; other site 1335307004710 putative DNA binding site [nucleotide binding]; other site 1335307004711 putative Zn2+ binding site [ion binding]; other site 1335307004712 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_5; cd08898 1335307004713 putative hydrophobic ligand binding site [chemical binding]; other site 1335307004714 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 1335307004715 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1335307004716 active site 1335307004717 metal binding site [ion binding]; metal-binding site 1335307004718 RES domain; Region: RES; smart00953 1335307004719 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1335307004720 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1335307004721 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1335307004722 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1335307004723 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1335307004724 Cupin domain; Region: Cupin_2; cl17218 1335307004725 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307004726 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1335307004727 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307004728 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 1335307004729 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1335307004730 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 1335307004731 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 1335307004732 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1335307004733 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 1335307004734 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1335307004735 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1335307004736 active site 1335307004737 tyrosine kinase; Provisional; Region: PRK11519 1335307004738 Chain length determinant protein; Region: Wzz; cl15801 1335307004739 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1335307004740 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 1335307004741 polysaccharide export protein Wza; Provisional; Region: PRK15078 1335307004742 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1335307004743 SLBB domain; Region: SLBB; pfam10531 1335307004744 SLBB domain; Region: SLBB; pfam10531 1335307004745 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1335307004746 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1335307004747 active site 1335307004748 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1335307004749 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1335307004750 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1335307004751 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1335307004752 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1335307004753 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1335307004754 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1335307004755 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1335307004756 Substrate binding site; other site 1335307004757 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1335307004758 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1335307004759 Protein of unknown function (DUF3501); Region: DUF3501; pfam12007 1335307004760 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1335307004761 Cysteine-rich domain; Region: CCG; pfam02754 1335307004762 Rubrerythrin [Energy production and conversion]; Region: COG1592 1335307004763 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 1335307004764 binuclear metal center [ion binding]; other site 1335307004765 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1335307004766 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 1335307004767 amidase catalytic site [active] 1335307004768 Zn binding residues [ion binding]; other site 1335307004769 substrate binding site [chemical binding]; other site 1335307004770 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1335307004771 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 1335307004772 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1335307004773 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 1335307004774 putative hydrophobic ligand binding site [chemical binding]; other site 1335307004775 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 1335307004776 YCII-related domain; Region: YCII; cl00999 1335307004777 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 1335307004778 generic binding surface I; other site 1335307004779 generic binding surface II; other site 1335307004780 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 1335307004781 putative active site [active] 1335307004782 putative catalytic site [active] 1335307004783 putative Mg binding site IVb [ion binding]; other site 1335307004784 putative phosphate binding site [ion binding]; other site 1335307004785 putative DNA binding site [nucleotide binding]; other site 1335307004786 putative Mg binding site IVa [ion binding]; other site 1335307004787 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1335307004788 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 1335307004789 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1335307004790 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1335307004791 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1335307004792 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1335307004793 N-terminal plug; other site 1335307004794 ligand-binding site [chemical binding]; other site 1335307004795 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 1335307004796 putative substrate translocation pore; other site 1335307004797 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1335307004798 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1335307004799 NAD(P) binding site [chemical binding]; other site 1335307004800 substrate binding site [chemical binding]; other site 1335307004801 dimer interface [polypeptide binding]; other site 1335307004802 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307004803 short chain dehydrogenase; Validated; Region: PRK07069 1335307004804 NAD(P) binding site [chemical binding]; other site 1335307004805 active site 1335307004806 short chain dehydrogenase; Provisional; Region: PRK07035 1335307004807 classical (c) SDRs; Region: SDR_c; cd05233 1335307004808 NAD(P) binding site [chemical binding]; other site 1335307004809 active site 1335307004810 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 1335307004811 catalytic core [active] 1335307004812 Phosphotransferase enzyme family; Region: APH; pfam01636 1335307004813 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 1335307004814 putative active site [active] 1335307004815 putative substrate binding site [chemical binding]; other site 1335307004816 ATP binding site [chemical binding]; other site 1335307004817 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1335307004818 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1335307004819 active site 1335307004820 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307004821 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307004822 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 1335307004823 substrate binding pocket [chemical binding]; other site 1335307004824 dimerization interface [polypeptide binding]; other site 1335307004825 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 1335307004826 Domain of unknown function (DUF3472); Region: DUF3472; pfam11958 1335307004827 Dyp-type peroxidase family; Region: Dyp_perox_fam; TIGR01413 1335307004828 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1335307004829 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1335307004830 Walker A/P-loop; other site 1335307004831 ATP binding site [chemical binding]; other site 1335307004832 Q-loop/lid; other site 1335307004833 ABC transporter signature motif; other site 1335307004834 Walker B; other site 1335307004835 D-loop; other site 1335307004836 H-loop/switch region; other site 1335307004837 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1335307004838 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 1335307004839 conserved cys residue [active] 1335307004840 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1335307004841 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1335307004842 conserved cys residue [active] 1335307004843 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307004844 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307004845 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1335307004846 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1335307004847 active site 1335307004848 HIGH motif; other site 1335307004849 dimer interface [polypeptide binding]; other site 1335307004850 KMSKS motif; other site 1335307004851 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 1335307004852 CAAX protease self-immunity; Region: Abi; pfam02517 1335307004853 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; cl02915 1335307004854 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1335307004855 Cl- selectivity filter; other site 1335307004856 Cl- binding residues [ion binding]; other site 1335307004857 pore gating glutamate residue; other site 1335307004858 dimer interface [polypeptide binding]; other site 1335307004859 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1335307004860 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 1335307004861 motif II; other site 1335307004862 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 1335307004863 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 1335307004864 active site 1335307004865 phosphorylation site [posttranslational modification] 1335307004866 intermolecular recognition site; other site 1335307004867 CheB methylesterase; Region: CheB_methylest; pfam01339 1335307004868 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1335307004869 putative binding surface; other site 1335307004870 active site 1335307004871 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1335307004872 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 1335307004873 ATP binding site [chemical binding]; other site 1335307004874 Mg2+ binding site [ion binding]; other site 1335307004875 G-X-G motif; other site 1335307004876 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 1335307004877 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 1335307004878 Response regulator receiver domain; Region: Response_reg; pfam00072 1335307004879 active site 1335307004880 phosphorylation site [posttranslational modification] 1335307004881 intermolecular recognition site; other site 1335307004882 dimerization interface [polypeptide binding]; other site 1335307004883 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1335307004884 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1335307004885 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 1335307004886 S-adenosylmethionine binding site [chemical binding]; other site 1335307004887 TPR repeat; Region: TPR_11; pfam13414 1335307004888 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 1335307004889 binding surface 1335307004890 TPR motif; other site 1335307004891 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 1335307004892 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1335307004893 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1335307004894 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 1335307004895 dimerization interface [polypeptide binding]; other site 1335307004896 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1335307004897 dimer interface [polypeptide binding]; other site 1335307004898 putative CheW interface [polypeptide binding]; other site 1335307004899 Response regulator receiver domain; Region: Response_reg; pfam00072 1335307004900 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 1335307004901 active site 1335307004902 phosphorylation site [posttranslational modification] 1335307004903 intermolecular recognition site; other site 1335307004904 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1335307004905 dimerization interface [polypeptide binding]; other site 1335307004906 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 1335307004907 dimer interface [polypeptide binding]; other site 1335307004908 phosphorylation site [posttranslational modification] 1335307004909 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 1335307004910 ATP binding site [chemical binding]; other site 1335307004911 Mg2+ binding site [ion binding]; other site 1335307004912 G-X-G motif; other site 1335307004913 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 1335307004914 active site 1335307004915 catalytic site [active] 1335307004916 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 1335307004917 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1335307004918 NAD(P) binding site [chemical binding]; other site 1335307004919 catalytic residues [active] 1335307004920 acetolactate synthase; Reviewed; Region: PRK08322 1335307004921 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1335307004922 PYR/PP interface [polypeptide binding]; other site 1335307004923 dimer interface [polypeptide binding]; other site 1335307004924 TPP binding site [chemical binding]; other site 1335307004925 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1335307004926 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 1335307004927 TPP-binding site [chemical binding]; other site 1335307004928 dimer interface [polypeptide binding]; other site 1335307004929 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1335307004930 Protein of unknown function (DUF445); Region: DUF445; pfam04286 1335307004931 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1335307004932 PLD-like domain; Region: PLDc_2; pfam13091 1335307004933 putative active site [active] 1335307004934 catalytic site [active] 1335307004935 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1335307004936 PLD-like domain; Region: PLDc_2; pfam13091 1335307004937 putative active site [active] 1335307004938 catalytic site [active] 1335307004939 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 1335307004940 HIT family signature motif; other site 1335307004941 catalytic residue [active] 1335307004942 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 1335307004943 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1335307004944 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1335307004945 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 1335307004946 [2Fe-2S] cluster binding site [ion binding]; other site 1335307004947 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 1335307004948 inter-subunit interface; other site 1335307004949 Rieske non-heme iron oxygenase (RO) family, Ortho-halobenzoate-1,2-dioxygenase (OHBDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of OHBDO, salicylate 5-hydroxylase (S5H); Region: Rieske_RO_Alpha_OHBDO_like; cd03545 1335307004950 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 1335307004951 putative alpha subunit interface [polypeptide binding]; other site 1335307004952 putative active site [active] 1335307004953 putative substrate binding site [chemical binding]; other site 1335307004954 Fe binding site [ion binding]; other site 1335307004955 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1335307004956 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1335307004957 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307004958 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 1335307004959 dimerization interface [polypeptide binding]; other site 1335307004960 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 1335307004961 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 1335307004962 octamer interface [polypeptide binding]; other site 1335307004963 active site 1335307004964 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 1335307004965 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 1335307004966 dimer interface [polypeptide binding]; other site 1335307004967 active site 1335307004968 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 1335307004969 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 1335307004970 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 1335307004971 Subunit I/III interface [polypeptide binding]; other site 1335307004972 Subunit III/IV interface [polypeptide binding]; other site 1335307004973 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1335307004974 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 1335307004975 D-pathway; other site 1335307004976 Putative ubiquinol binding site [chemical binding]; other site 1335307004977 Low-spin heme (heme b) binding site [chemical binding]; other site 1335307004978 Putative water exit pathway; other site 1335307004979 Binuclear center (heme o3/CuB) [ion binding]; other site 1335307004980 K-pathway; other site 1335307004981 Putative proton exit pathway; other site 1335307004982 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 1335307004983 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1335307004984 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1335307004985 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1335307004986 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 1335307004987 active site 1335307004988 FMN binding site [chemical binding]; other site 1335307004989 2,4-decadienoyl-CoA binding site; other site 1335307004990 catalytic residue [active] 1335307004991 4Fe-4S cluster binding site [ion binding]; other site 1335307004992 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1335307004993 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1335307004994 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1335307004995 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307004996 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307004997 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307004998 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 1335307004999 dimerization interface [polypeptide binding]; other site 1335307005000 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307005001 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1335307005002 NAD(P) binding site [chemical binding]; other site 1335307005003 active site 1335307005004 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1335307005005 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307005006 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 1335307005007 dimerizarion interface [polypeptide binding]; other site 1335307005008 CrgA pocket; other site 1335307005009 substrate binding pocket [chemical binding]; other site 1335307005010 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 1335307005011 Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) 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_HBDO; cd03542 1335307005012 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 1335307005013 putative alpha subunit interface [polypeptide binding]; other site 1335307005014 putative active site [active] 1335307005015 putative substrate binding site [chemical binding]; other site 1335307005016 Fe binding site [ion binding]; other site 1335307005017 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 1335307005018 inter-subunit interface; other site 1335307005019 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 1335307005020 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 1335307005021 catalytic loop [active] 1335307005022 iron binding site [ion binding]; other site 1335307005023 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 1335307005024 FAD binding pocket [chemical binding]; other site 1335307005025 FAD binding motif [chemical binding]; other site 1335307005026 phosphate binding motif [ion binding]; other site 1335307005027 beta-alpha-beta structure motif; other site 1335307005028 NAD binding pocket [chemical binding]; other site 1335307005029 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 1335307005030 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 1335307005031 putative NAD(P) binding site [chemical binding]; other site 1335307005032 active site 1335307005033 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1335307005034 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 1335307005035 nucleophilic elbow; other site 1335307005036 catalytic triad; other site 1335307005037 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1335307005038 Isochorismatase family; Region: Isochorismatase; pfam00857 1335307005039 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 1335307005040 catalytic triad [active] 1335307005041 conserved cis-peptide bond; other site 1335307005042 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 1335307005043 Asp-box motif; other site 1335307005044 lysine transporter; Provisional; Region: PRK10836 1335307005045 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1335307005046 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1335307005047 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1335307005048 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1335307005049 Beta-Casp domain; Region: Beta-Casp; smart01027 1335307005050 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1335307005051 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 1335307005052 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1335307005053 NAD(P) binding site [chemical binding]; other site 1335307005054 homotetramer interface [polypeptide binding]; other site 1335307005055 homodimer interface [polypeptide binding]; other site 1335307005056 active site 1335307005057 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1335307005058 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 1335307005059 ligand binding site [chemical binding]; other site 1335307005060 flexible hinge region; other site 1335307005061 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 1335307005062 putative switch regulator; other site 1335307005063 non-specific DNA interactions [nucleotide binding]; other site 1335307005064 DNA binding site [nucleotide binding] 1335307005065 sequence specific DNA binding site [nucleotide binding]; other site 1335307005066 putative cAMP binding site [chemical binding]; other site 1335307005067 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1335307005068 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 1335307005069 putative NAD(P) binding site [chemical binding]; other site 1335307005070 putative substrate binding site [chemical binding]; other site 1335307005071 catalytic Zn binding site [ion binding]; other site 1335307005072 structural Zn binding site [ion binding]; other site 1335307005073 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 1335307005074 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 1335307005075 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1335307005076 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1335307005077 BON domain; Region: BON; pfam04972 1335307005078 BON domain; Region: BON; pfam04972 1335307005079 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 1335307005080 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 1335307005081 ligand-binding site [chemical binding]; other site 1335307005082 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1335307005083 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 1335307005084 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1335307005085 dimer interface [polypeptide binding]; other site 1335307005086 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1335307005087 putative CheW interface [polypeptide binding]; other site 1335307005088 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1335307005089 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1335307005090 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1335307005091 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1335307005092 Walker A/P-loop; other site 1335307005093 ATP binding site [chemical binding]; other site 1335307005094 Q-loop/lid; other site 1335307005095 ABC transporter signature motif; other site 1335307005096 Walker B; other site 1335307005097 D-loop; other site 1335307005098 H-loop/switch region; other site 1335307005099 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1335307005100 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1335307005101 FtsX-like permease family; Region: FtsX; pfam02687 1335307005102 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 1335307005103 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 1335307005104 Ligand Binding Site [chemical binding]; other site 1335307005105 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1335307005106 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1335307005107 HlyD family secretion protein; Region: HlyD; pfam00529 1335307005108 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1335307005109 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 1335307005110 HlyD family secretion protein; Region: HlyD_3; pfam13437 1335307005111 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1335307005112 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1335307005113 Walker A/P-loop; other site 1335307005114 ATP binding site [chemical binding]; other site 1335307005115 Q-loop/lid; other site 1335307005116 ABC transporter signature motif; other site 1335307005117 Walker B; other site 1335307005118 D-loop; other site 1335307005119 H-loop/switch region; other site 1335307005120 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1335307005121 Walker A/P-loop; other site 1335307005122 ATP binding site [chemical binding]; other site 1335307005123 Q-loop/lid; other site 1335307005124 ABC transporter signature motif; other site 1335307005125 Walker B; other site 1335307005126 D-loop; other site 1335307005127 H-loop/switch region; other site 1335307005128 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1335307005129 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1335307005130 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1335307005131 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1335307005132 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1335307005133 PAS fold; Region: PAS_4; pfam08448 1335307005134 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1335307005135 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 1335307005136 dimer interface [polypeptide binding]; other site 1335307005137 phosphorylation site [posttranslational modification] 1335307005138 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 1335307005139 ATP binding site [chemical binding]; other site 1335307005140 Mg2+ binding site [ion binding]; other site 1335307005141 G-X-G motif; other site 1335307005142 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1335307005143 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 1335307005144 active site 1335307005145 phosphorylation site [posttranslational modification] 1335307005146 intermolecular recognition site; other site 1335307005147 dimerization interface [polypeptide binding]; other site 1335307005148 Cache domain; Region: Cache_2; pfam08269 1335307005149 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1335307005150 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1335307005151 dimer interface [polypeptide binding]; other site 1335307005152 putative CheW interface [polypeptide binding]; other site 1335307005153 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1335307005154 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1335307005155 NAD binding site [chemical binding]; other site 1335307005156 substrate binding site [chemical binding]; other site 1335307005157 catalytic Zn binding site [ion binding]; other site 1335307005158 tetramer interface [polypeptide binding]; other site 1335307005159 structural Zn binding site [ion binding]; other site 1335307005160 ATP synthase; Region: ATP-synt; pfam00231 1335307005161 core domain interface [polypeptide binding]; other site 1335307005162 delta subunit interface [polypeptide binding]; other site 1335307005163 epsilon subunit interface [polypeptide binding]; other site 1335307005164 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1335307005165 type III secretion apparatus H+-transporting two-sector ATPase; Region: III_secr_ATP; TIGR02546 1335307005166 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 1335307005167 Walker A motif; other site 1335307005168 ATP binding site [chemical binding]; other site 1335307005169 Walker B motif; other site 1335307005170 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1335307005171 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1335307005172 F0F1 ATP synthase subunit C; Provisional; Region: PRK13468 1335307005173 F0F1 ATP synthase subunit A; Provisional; Region: PRK13421 1335307005174 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 1335307005175 F0F1 ATP synthase subunit epsilon; Provisional; Region: PRK13447 1335307005176 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1335307005177 gamma subunit interface [polypeptide binding]; other site 1335307005178 epsilon subunit interface [polypeptide binding]; other site 1335307005179 LBP interface [polypeptide binding]; other site 1335307005180 F0F1 ATP synthase subunit beta; Provisional; Region: PRK12597 1335307005181 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1335307005182 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 1335307005183 alpha subunit interaction interface [polypeptide binding]; other site 1335307005184 Walker A motif; other site 1335307005185 ATP binding site [chemical binding]; other site 1335307005186 Walker B motif; other site 1335307005187 inhibitor binding site; inhibition site 1335307005188 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1335307005189 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 1335307005190 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 1335307005191 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1335307005192 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 1335307005193 (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 1335307005194 dimer interaction site [polypeptide binding]; other site 1335307005195 substrate-binding tunnel; other site 1335307005196 active site 1335307005197 catalytic site [active] 1335307005198 substrate binding site [chemical binding]; other site 1335307005199 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 1335307005200 acetate kinase; Provisional; Region: PRK07058 1335307005201 propionate/acetate kinase; Provisional; Region: PRK12379 1335307005202 6-phosphofructokinase 2; Provisional; Region: PRK10294 1335307005203 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 1335307005204 putative substrate binding site [chemical binding]; other site 1335307005205 putative ATP binding site [chemical binding]; other site 1335307005206 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1335307005207 BON domain; Region: BON; pfam04972 1335307005208 BON domain; Region: BON; pfam04972 1335307005209 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 1335307005210 active site 1335307005211 catalytic motif [active] 1335307005212 Zn binding site [ion binding]; other site 1335307005213 thymidine phosphorylase; Region: T_phosphoryl; TIGR02643 1335307005214 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1335307005215 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1335307005216 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 1335307005217 deoxyribose-phosphate aldolase; Provisional; Region: PRK05283 1335307005218 catalytic residue [active] 1335307005219 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1335307005220 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1335307005221 Nucleoside recognition; Region: Gate; pfam07670 1335307005222 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1335307005223 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1335307005224 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 1335307005225 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1335307005226 putative C-terminal domain interface [polypeptide binding]; other site 1335307005227 putative GSH binding site (G-site) [chemical binding]; other site 1335307005228 putative dimer interface [polypeptide binding]; other site 1335307005229 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1335307005230 N-terminal domain interface [polypeptide binding]; other site 1335307005231 dimer interface [polypeptide binding]; other site 1335307005232 substrate binding pocket (H-site) [chemical binding]; other site 1335307005233 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307005234 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307005235 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 1335307005236 putative effector binding pocket; other site 1335307005237 dimerization interface [polypeptide binding]; other site 1335307005238 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1335307005239 short chain dehydrogenase; Provisional; Region: PRK06181 1335307005240 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307005241 NAD(P) binding site [chemical binding]; other site 1335307005242 active site 1335307005243 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1335307005244 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1335307005245 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1335307005246 Protein of unknown function (DUF3268); Region: DUF3268; pfam11672 1335307005247 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 1335307005248 peptidase domain interface [polypeptide binding]; other site 1335307005249 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 1335307005250 active site 1335307005251 catalytic triad [active] 1335307005252 calcium binding site [ion binding]; other site 1335307005253 Phospholipid methyltransferase; Region: PEMT; cl17370 1335307005254 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional; Region: PRK09841 1335307005255 Chain length determinant protein; Region: Wzz; pfam02706 1335307005256 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1335307005257 Transposase domain (DUF772); Region: DUF772; pfam05598 1335307005258 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1335307005259 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1335307005260 Glycosyl hydrolase catalytic core; Region: Glyco_hydro_cc; pfam11790 1335307005261 Integrase core domain; Region: rve; pfam00665 1335307005262 Integrase core domain; Region: rve_3; pfam13683 1335307005263 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1335307005264 Transposase; Region: HTH_Tnp_1; pfam01527 1335307005265 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 1335307005266 putative metal binding site [ion binding]; other site 1335307005267 putative homodimer interface [polypeptide binding]; other site 1335307005268 putative homotetramer interface [polypeptide binding]; other site 1335307005269 putative homodimer-homodimer interface [polypeptide binding]; other site 1335307005270 putative allosteric switch controlling residues; other site 1335307005271 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1335307005272 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1335307005273 Catalytic domain, repeat 1, of Deoxyribonuclease II and similar proteins; Region: PLDc_DNaseII_1; cd09120 1335307005274 Deoxyribonuclease II; Region: DNase_II; pfam03265 1335307005275 putative active site [active] 1335307005276 catalytic site [active] 1335307005277 Catalytic domain, repeat 2, of Deoxyribonuclease II and similar proteins; Region: PLDc_DNaseII_2; cd09121 1335307005278 putative active site [active] 1335307005279 catalytic site [active] 1335307005280 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1335307005281 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1335307005282 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1335307005283 active site 1335307005284 metal binding site [ion binding]; metal-binding site 1335307005285 Ferritin-like; Region: Ferritin-like; pfam12902 1335307005286 aldolase II superfamily protein; Provisional; Region: PRK07044 1335307005287 intersubunit interface [polypeptide binding]; other site 1335307005288 active site 1335307005289 Zn2+ binding site [ion binding]; other site 1335307005290 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 1335307005291 putative uracil binding site [chemical binding]; other site 1335307005292 putative active site [active] 1335307005293 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 1335307005294 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 1335307005295 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 1335307005296 active site 1335307005297 catalytic triad [active] 1335307005298 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1335307005299 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 1335307005300 active site 1335307005301 phosphorylation site [posttranslational modification] 1335307005302 intermolecular recognition site; other site 1335307005303 dimerization interface [polypeptide binding]; other site 1335307005304 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 1335307005305 DNA binding site [nucleotide binding] 1335307005306 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1335307005307 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 1335307005308 dimerization interface [polypeptide binding]; other site 1335307005309 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 1335307005310 dimer interface [polypeptide binding]; other site 1335307005311 phosphorylation site [posttranslational modification] 1335307005312 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 1335307005313 ATP binding site [chemical binding]; other site 1335307005314 Mg2+ binding site [ion binding]; other site 1335307005315 G-X-G motif; other site 1335307005316 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 1335307005317 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 1335307005318 Transposase domain (DUF772); Region: DUF772; pfam05598 1335307005319 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1335307005320 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1335307005321 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1335307005322 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1335307005323 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1335307005324 Iron permease FTR1 family; Region: FTR1; cl00475 1335307005325 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1335307005326 CTP synthase; Region: PyrG; TIGR00337 1335307005327 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 1335307005328 substrate binding pocket [chemical binding]; other site 1335307005329 membrane-bound complex binding site; other site 1335307005330 hinge residues; other site 1335307005331 Predicted metal-binding protein [General function prediction only]; Region: COG3019 1335307005332 Transposase; Region: HTH_Tnp_1; pfam01527 1335307005333 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 1335307005334 Domain of unknown function (DUF1864); Region: DUF1864; pfam08933 1335307005335 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 1335307005336 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1335307005337 This alignment model represents the N-terminal rieske domain of the oxygenase alpha subunit of aminopyrrolnitrin oxygenase (PrnD). PrnD is a novel Rieske N-oxygenase that catalyzes the final step in the pyrrolnitrin biosynthetic pathway, the oxidation...; Region: Rieske_RO_Alpha_PrnD; cd03537 1335307005338 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1335307005339 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1335307005340 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1335307005341 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 1335307005342 glutaminase active site [active] 1335307005343 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 1335307005344 dimer interface [polypeptide binding]; other site 1335307005345 active site 1335307005346 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 1335307005347 dimer interface [polypeptide binding]; other site 1335307005348 active site 1335307005349 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1335307005350 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1335307005351 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1335307005352 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1335307005353 DXD motif; other site 1335307005354 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1335307005355 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1335307005356 active site 1335307005357 homodimer interface [polypeptide binding]; other site 1335307005358 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 1335307005359 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307005360 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 1335307005361 dimerization interface [polypeptide binding]; other site 1335307005362 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1335307005363 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 1335307005364 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 1335307005365 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 1335307005366 tyrosine decarboxylase MnfA; Region: tyr_de_CO2_Arch; TIGR03812 1335307005367 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1335307005368 catalytic residue [active] 1335307005369 Bulb-type mannose-specific lectin. The domain contains a three-fold internal repeat (beta-prism architecture). The consensus sequence motif QXDXNXVXY is involved in alpha-D-mannose recognition. Lectins are carbohydrate-binding proteins which specifically...; Region: B_lectin; cd00028 1335307005370 D-mannose binding lectin; Region: B_lectin; pfam01453 1335307005371 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1335307005372 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1335307005373 NAD binding site [chemical binding]; other site 1335307005374 catalytic Zn binding site [ion binding]; other site 1335307005375 structural Zn binding site [ion binding]; other site 1335307005376 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 1335307005377 tyrosine decarboxylase MnfA; Region: tyr_de_CO2_Arch; TIGR03812 1335307005378 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1335307005379 catalytic residue [active] 1335307005380 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_2; cd07805 1335307005381 N- and C-terminal domain interface [polypeptide binding]; other site 1335307005382 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1335307005383 active site 1335307005384 MgATP binding site [chemical binding]; other site 1335307005385 catalytic site [active] 1335307005386 metal binding site [ion binding]; metal-binding site 1335307005387 xylulose binding site [chemical binding]; other site 1335307005388 putative homodimer interface [polypeptide binding]; other site 1335307005389 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1335307005390 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1335307005391 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1335307005392 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1335307005393 active site 1335307005394 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1335307005395 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 1335307005396 NAD(P) binding site [chemical binding]; other site 1335307005397 substrate binding site [chemical binding]; other site 1335307005398 homotetramer interface [polypeptide binding]; other site 1335307005399 active site 1335307005400 homodimer interface [polypeptide binding]; other site 1335307005401 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1335307005402 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1335307005403 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1335307005404 active site 1335307005405 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 1335307005406 enoyl-CoA hydratase; Provisional; Region: PRK07468 1335307005407 substrate binding site [chemical binding]; other site 1335307005408 oxyanion hole (OAH) forming residues; other site 1335307005409 trimer interface [polypeptide binding]; other site 1335307005410 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1335307005411 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1335307005412 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1335307005413 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 1335307005414 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 1335307005415 carboxyltransferase (CT) interaction site; other site 1335307005416 biotinylation site [posttranslational modification]; other site 1335307005417 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1335307005418 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1335307005419 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1335307005420 acyl-activating enzyme (AAE) consensus motif; other site 1335307005421 AMP binding site [chemical binding]; other site 1335307005422 active site 1335307005423 CoA binding site [chemical binding]; other site 1335307005424 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 1335307005425 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1335307005426 Di-iron ligands [ion binding]; other site 1335307005427 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 1335307005428 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1335307005429 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1335307005430 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 1335307005431 S-adenosylmethionine binding site [chemical binding]; other site 1335307005432 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 1335307005433 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1335307005434 Di-iron ligands [ion binding]; other site 1335307005435 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 1335307005436 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1335307005437 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 1335307005438 active site 1335307005439 acyl-CoA synthetase; Validated; Region: PRK05850 1335307005440 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 1335307005441 acyl-activating enzyme (AAE) consensus motif; other site 1335307005442 active site 1335307005443 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 1335307005444 CoenzymeA binding site [chemical binding]; other site 1335307005445 subunit interaction site [polypeptide binding]; other site 1335307005446 PHB binding site; other site 1335307005447 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1335307005448 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 1335307005449 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 1335307005450 dimer interface [polypeptide binding]; other site 1335307005451 ADP-ribose binding site [chemical binding]; other site 1335307005452 active site 1335307005453 nudix motif; other site 1335307005454 metal binding site [ion binding]; metal-binding site 1335307005455 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1335307005456 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1335307005457 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1335307005458 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1335307005459 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1335307005460 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 1335307005461 Integrase core domain; Region: rve; pfam00665 1335307005462 Integrase core domain; Region: rve; pfam00665 1335307005463 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1335307005464 Integrase core domain; Region: rve_3; pfam13683 1335307005465 Transposase; Region: HTH_Tnp_1; pfam01527 1335307005466 hypothetical protein; Provisional; Region: PHA02923 1335307005467 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 1335307005468 putative active site [active] 1335307005469 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 1335307005470 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 1335307005471 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 1335307005472 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 1335307005473 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 1335307005474 inhibitor-cofactor binding pocket; inhibition site 1335307005475 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307005476 catalytic residue [active] 1335307005477 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307005478 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1335307005479 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 1335307005480 substrate binding pocket [chemical binding]; other site 1335307005481 dimerization interface [polypeptide binding]; other site 1335307005482 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1335307005483 putative CheW interface [polypeptide binding]; other site 1335307005484 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 1335307005485 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1335307005486 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1335307005487 Walker A/P-loop; other site 1335307005488 ATP binding site [chemical binding]; other site 1335307005489 Q-loop/lid; other site 1335307005490 ABC transporter signature motif; other site 1335307005491 Walker B; other site 1335307005492 D-loop; other site 1335307005493 H-loop/switch region; other site 1335307005494 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1335307005495 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 1335307005496 dimer interface [polypeptide binding]; other site 1335307005497 conserved gate region; other site 1335307005498 putative PBP binding loops; other site 1335307005499 ABC-ATPase subunit interface; other site 1335307005500 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 1335307005501 dimer interface [polypeptide binding]; other site 1335307005502 conserved gate region; other site 1335307005503 putative PBP binding loops; other site 1335307005504 ABC-ATPase subunit interface; other site 1335307005505 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 1335307005506 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1335307005507 substrate binding pocket [chemical binding]; other site 1335307005508 membrane-bound complex binding site; other site 1335307005509 hinge residues; other site 1335307005510 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1335307005511 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307005512 Walker A/P-loop; other site 1335307005513 ATP binding site [chemical binding]; other site 1335307005514 Q-loop/lid; other site 1335307005515 ABC transporter signature motif; other site 1335307005516 Walker B; other site 1335307005517 D-loop; other site 1335307005518 H-loop/switch region; other site 1335307005519 TOBE domain; Region: TOBE_2; pfam08402 1335307005520 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1335307005521 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 1335307005522 dimer interface [polypeptide binding]; other site 1335307005523 conserved gate region; other site 1335307005524 putative PBP binding loops; other site 1335307005525 ABC-ATPase subunit interface; other site 1335307005526 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1335307005527 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 1335307005528 dimer interface [polypeptide binding]; other site 1335307005529 conserved gate region; other site 1335307005530 putative PBP binding loops; other site 1335307005531 ABC-ATPase subunit interface; other site 1335307005532 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1335307005533 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1335307005534 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1335307005535 Arabidopsis betaine aldehyde dehydrogenase 1 and 2, ALDH family 10A8 and 10A9-like; Region: ALDH_F10_BADH; cd07110 1335307005536 NAD(P) binding site [chemical binding]; other site 1335307005537 catalytic residues [active] 1335307005538 catalytic residues [active] 1335307005539 hypothetical protein; Provisional; Region: PRK07524 1335307005540 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1335307005541 PYR/PP interface [polypeptide binding]; other site 1335307005542 dimer interface [polypeptide binding]; other site 1335307005543 TPP binding site [chemical binding]; other site 1335307005544 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1335307005545 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 1335307005546 TPP-binding site [chemical binding]; other site 1335307005547 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 1335307005548 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 1335307005549 substrate binding pocket [chemical binding]; other site 1335307005550 membrane-bound complex binding site; other site 1335307005551 hinge residues; other site 1335307005552 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307005553 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307005554 trimer interface [polypeptide binding]; other site 1335307005555 eyelet of channel; other site 1335307005556 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1335307005557 agmatinase; Region: agmatinase; TIGR01230 1335307005558 oligomer interface [polypeptide binding]; other site 1335307005559 putative active site [active] 1335307005560 Mn binding site [ion binding]; other site 1335307005561 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307005562 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307005563 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 1335307005564 dimerization interface [polypeptide binding]; other site 1335307005565 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1335307005566 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 1335307005567 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1335307005568 Transposase; Region: HTH_Tnp_1; pfam01527 1335307005569 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 1335307005570 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 1335307005571 DNA binding site [nucleotide binding] 1335307005572 active site 1335307005573 Int/Topo IB signature motif; other site 1335307005574 Phage integrase protein; Region: DUF3701; pfam12482 1335307005575 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 1335307005576 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 1335307005577 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 1335307005578 active site 1335307005579 DNA binding site [nucleotide binding] 1335307005580 Int/Topo IB signature motif; other site 1335307005581 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1335307005582 RHS Repeat; Region: RHS_repeat; pfam05593 1335307005583 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1335307005584 RHS Repeat; Region: RHS_repeat; pfam05593 1335307005585 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1335307005586 RHS Repeat; Region: RHS_repeat; pfam05593 1335307005587 RHS Repeat; Region: RHS_repeat; pfam05593 1335307005588 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1335307005589 RHS protein; Region: RHS; pfam03527 1335307005590 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1335307005591 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1335307005592 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1335307005593 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1335307005594 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1335307005595 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1335307005596 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 1335307005597 homotrimer interaction site [polypeptide binding]; other site 1335307005598 putative active site [active] 1335307005599 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1335307005600 active site 1335307005601 homotetramer interface [polypeptide binding]; other site 1335307005602 homodimer interface [polypeptide binding]; other site 1335307005603 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1335307005604 YheO-like PAS domain; Region: PAS_6; pfam08348 1335307005605 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 1335307005606 DNA-binding interface [nucleotide binding]; DNA binding site 1335307005607 Integrase core domain; Region: rve_3; cl15866 1335307005608 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1335307005609 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1335307005610 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307005611 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307005612 trimer interface [polypeptide binding]; other site 1335307005613 eyelet of channel; other site 1335307005614 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1335307005615 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1335307005616 dimer interface [polypeptide binding]; other site 1335307005617 NADP binding site [chemical binding]; other site 1335307005618 catalytic residues [active] 1335307005619 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 1335307005620 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1335307005621 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 1335307005622 active site 1335307005623 catalytic residues [active] 1335307005624 short chain dehydrogenase; Provisional; Region: PRK12827 1335307005625 classical (c) SDRs; Region: SDR_c; cd05233 1335307005626 NAD(P) binding site [chemical binding]; other site 1335307005627 active site 1335307005628 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1335307005629 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1335307005630 Walker A/P-loop; other site 1335307005631 ATP binding site [chemical binding]; other site 1335307005632 Q-loop/lid; other site 1335307005633 ABC transporter signature motif; other site 1335307005634 Walker B; other site 1335307005635 D-loop; other site 1335307005636 H-loop/switch region; other site 1335307005637 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 1335307005638 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1335307005639 TM-ABC transporter signature motif; other site 1335307005640 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1335307005641 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 1335307005642 putative ligand binding site [chemical binding]; other site 1335307005643 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1335307005644 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 1335307005645 active site pocket [active] 1335307005646 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1335307005647 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1335307005648 DNA-binding site [nucleotide binding]; DNA binding site 1335307005649 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1335307005650 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1335307005651 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 1335307005652 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1335307005653 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1335307005654 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1335307005655 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1335307005656 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1335307005657 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1335307005658 putative active site [active] 1335307005659 putative NTP binding site [chemical binding]; other site 1335307005660 putative nucleic acid binding site [nucleotide binding]; other site 1335307005661 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1335307005662 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1335307005663 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1335307005664 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1335307005665 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1335307005666 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1335307005667 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1335307005668 Melibiase; Region: Melibiase; pfam02065 1335307005669 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1335307005670 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 1335307005671 dimer interface [polypeptide binding]; other site 1335307005672 conserved gate region; other site 1335307005673 putative PBP binding loops; other site 1335307005674 ABC-ATPase subunit interface; other site 1335307005675 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1335307005676 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 1335307005677 dimer interface [polypeptide binding]; other site 1335307005678 conserved gate region; other site 1335307005679 putative PBP binding loops; other site 1335307005680 ABC-ATPase subunit interface; other site 1335307005681 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1335307005682 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1335307005683 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 1335307005684 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1335307005685 Walker A/P-loop; other site 1335307005686 ATP binding site [chemical binding]; other site 1335307005687 Q-loop/lid; other site 1335307005688 ABC transporter signature motif; other site 1335307005689 Walker B; other site 1335307005690 D-loop; other site 1335307005691 H-loop/switch region; other site 1335307005692 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 1335307005693 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1335307005694 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1335307005695 DNA binding site [nucleotide binding] 1335307005696 domain linker motif; other site 1335307005697 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1335307005698 dimerization interface [polypeptide binding]; other site 1335307005699 ligand binding site [chemical binding]; other site 1335307005700 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 1335307005701 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1335307005702 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1335307005703 Presynaptic Site I dimer interface [polypeptide binding]; other site 1335307005704 catalytic residues [active] 1335307005705 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1335307005706 Synaptic Flat tetramer interface [polypeptide binding]; other site 1335307005707 Synaptic Site I dimer interface [polypeptide binding]; other site 1335307005708 DNA binding site [nucleotide binding] 1335307005709 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1335307005710 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1335307005711 putative transposase OrfB; Reviewed; Region: PHA02517 1335307005712 Integrase core domain; Region: rve; pfam00665 1335307005713 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1335307005714 putative transposase OrfB; Reviewed; Region: PHA02517 1335307005715 HTH-like domain; Region: HTH_21; pfam13276 1335307005716 Integrase core domain; Region: rve; pfam00665 1335307005717 Integrase core domain; Region: rve_3; pfam13683 1335307005718 Transposase; Region: HTH_Tnp_1; pfam01527 1335307005719 Winged helix-turn helix; Region: HTH_29; pfam13551 1335307005720 putative transposase OrfB; Reviewed; Region: PHA02517 1335307005721 HTH-like domain; Region: HTH_21; pfam13276 1335307005722 Integrase core domain; Region: rve; pfam00665 1335307005723 Integrase core domain; Region: rve_3; pfam13683 1335307005724 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1335307005725 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1335307005726 RHS Repeat; Region: RHS_repeat; pfam05593 1335307005727 RHS Repeat; Region: RHS_repeat; pfam05593 1335307005728 RHS Repeat; Region: RHS_repeat; cl11982 1335307005729 RHS Repeat; Region: RHS_repeat; cl11982 1335307005730 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1335307005731 RHS Repeat; Region: RHS_repeat; pfam05593 1335307005732 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1335307005733 Integrase core domain; Region: rve; pfam00665 1335307005734 Integrase core domain; Region: rve_3; pfam13683 1335307005735 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1335307005736 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1335307005737 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1335307005738 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 1335307005739 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1335307005740 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 1335307005741 Walker A motif; other site 1335307005742 ATP binding site [chemical binding]; other site 1335307005743 Walker B motif; other site 1335307005744 arginine finger; other site 1335307005745 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 1335307005746 Walker A motif; other site 1335307005747 ATP binding site [chemical binding]; other site 1335307005748 Walker B motif; other site 1335307005749 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1335307005750 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 1335307005751 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1335307005752 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 1335307005753 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1335307005754 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1335307005755 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 1335307005756 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1335307005757 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1335307005758 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 1335307005759 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1335307005760 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1335307005761 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1335307005762 active site 1335307005763 ATP binding site [chemical binding]; other site 1335307005764 substrate binding site [chemical binding]; other site 1335307005765 activation loop (A-loop); other site 1335307005766 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; pfam09867 1335307005767 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 1335307005768 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1335307005769 G1 box; other site 1335307005770 GTP/Mg2+ binding site [chemical binding]; other site 1335307005771 G2 box; other site 1335307005772 G3 box; other site 1335307005773 Switch II region; other site 1335307005774 G4 box; other site 1335307005775 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1335307005776 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1335307005777 hypothetical protein; Provisional; Region: PRK07033 1335307005778 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1335307005779 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1335307005780 ligand binding site [chemical binding]; other site 1335307005781 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 1335307005782 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1335307005783 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 1335307005784 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 1335307005785 phosphopeptide binding site; other site 1335307005786 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 1335307005787 hypothetical protein; Provisional; Region: PRK07538 1335307005788 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1335307005789 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1335307005790 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307005791 NAD(P) binding site [chemical binding]; other site 1335307005792 active site 1335307005793 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1335307005794 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307005795 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 1335307005796 dimerization interface [polypeptide binding]; other site 1335307005797 substrate binding pocket [chemical binding]; other site 1335307005798 D-serine dehydratase; Provisional; Region: PRK02991 1335307005799 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1335307005800 catalytic residue [active] 1335307005801 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1335307005802 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307005803 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 1335307005804 dimerization interface [polypeptide binding]; other site 1335307005805 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 1335307005806 dimerization interface [polypeptide binding]; other site 1335307005807 putative DNA binding site [nucleotide binding]; other site 1335307005808 putative Zn2+ binding site [ion binding]; other site 1335307005809 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 1335307005810 active site residue [active] 1335307005811 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1335307005812 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 1335307005813 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1335307005814 putative substrate translocation pore; other site 1335307005815 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1335307005816 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1335307005817 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1335307005818 catalytic residue [active] 1335307005819 metabolite-proton symporter; Region: 2A0106; TIGR00883 1335307005820 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 1335307005821 putative substrate translocation pore; other site 1335307005822 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307005823 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 1335307005824 dimerization interface [polypeptide binding]; other site 1335307005825 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1335307005826 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 1335307005827 phosphate binding site [ion binding]; other site 1335307005828 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 1335307005829 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1335307005830 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1335307005831 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1335307005832 Bacterial transcriptional regulator; Region: IclR; pfam01614 1335307005833 indole acetimide hydrolase; Validated; Region: PRK07488 1335307005834 Amidase; Region: Amidase; pfam01425 1335307005835 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 1335307005836 CoA binding domain; Region: CoA_binding_2; pfam13380 1335307005837 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1335307005838 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1335307005839 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1335307005840 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1335307005841 Coenzyme A binding pocket [chemical binding]; other site 1335307005842 H-NS histone family; Region: Histone_HNS; pfam00816 1335307005843 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1335307005844 PAS fold; Region: PAS_4; pfam08448 1335307005845 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1335307005846 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 1335307005847 Walker B motif; other site 1335307005848 arginine finger; other site 1335307005849 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1335307005850 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1335307005851 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1335307005852 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1335307005853 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 1335307005854 active site residue [active] 1335307005855 outer membrane porin, OprD family; Region: OprD; pfam03573 1335307005856 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 1335307005857 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1335307005858 Walker A/P-loop; other site 1335307005859 ATP binding site [chemical binding]; other site 1335307005860 Q-loop/lid; other site 1335307005861 ABC transporter signature motif; other site 1335307005862 Walker B; other site 1335307005863 D-loop; other site 1335307005864 H-loop/switch region; other site 1335307005865 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1335307005866 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1335307005867 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1335307005868 Walker A/P-loop; other site 1335307005869 ATP binding site [chemical binding]; other site 1335307005870 Q-loop/lid; other site 1335307005871 ABC transporter signature motif; other site 1335307005872 Walker B; other site 1335307005873 D-loop; other site 1335307005874 H-loop/switch region; other site 1335307005875 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1335307005876 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 1335307005877 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 1335307005878 dimer interface [polypeptide binding]; other site 1335307005879 conserved gate region; other site 1335307005880 putative PBP binding loops; other site 1335307005881 ABC-ATPase subunit interface; other site 1335307005882 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 1335307005883 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 1335307005884 dimer interface [polypeptide binding]; other site 1335307005885 conserved gate region; other site 1335307005886 putative PBP binding loops; other site 1335307005887 ABC-ATPase subunit interface; other site 1335307005888 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 1335307005889 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1335307005890 peptide binding site [polypeptide binding]; other site 1335307005891 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1335307005892 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 1335307005893 non-specific DNA binding site [nucleotide binding]; other site 1335307005894 salt bridge; other site 1335307005895 sequence-specific DNA binding site [nucleotide binding]; other site 1335307005896 Cupin domain; Region: Cupin_2; pfam07883 1335307005897 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 1335307005898 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 1335307005899 putative substrate translocation pore; other site 1335307005900 POT family; Region: PTR2; cl17359 1335307005901 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1335307005902 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1335307005903 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307005904 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 1335307005905 substrate binding pocket [chemical binding]; other site 1335307005906 dimerization interface [polypeptide binding]; other site 1335307005907 Integrase core domain; Region: rve; pfam00665 1335307005908 Integrase core domain; Region: rve_3; pfam13683 1335307005909 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1335307005910 Transposase; Region: HTH_Tnp_1; pfam01527 1335307005911 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1335307005912 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1335307005913 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1335307005914 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1335307005915 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1335307005916 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1335307005917 NAD(P) binding site [chemical binding]; other site 1335307005918 Isochorismatase family; Region: Isochorismatase; pfam00857 1335307005919 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 1335307005920 catalytic triad [active] 1335307005921 conserved cis-peptide bond; other site 1335307005922 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 1335307005923 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1335307005924 putative substrate translocation pore; other site 1335307005925 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 1335307005926 phosphate:H+ symporter; Region: 2A0109; TIGR00887 1335307005927 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 1335307005928 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 1335307005929 putative substrate translocation pore; other site 1335307005930 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1335307005931 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1335307005932 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1335307005933 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1335307005934 Bacterial transcriptional regulator; Region: IclR; pfam01614 1335307005935 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1335307005936 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307005937 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307005938 eyelet of channel; other site 1335307005939 trimer interface [polypeptide binding]; other site 1335307005940 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 1335307005941 2-methylcitrate dehydratase; Region: prpD; TIGR02330 1335307005942 OpgC protein; Region: OpgC_C; pfam10129 1335307005943 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1335307005944 acylphosphatase; Provisional; Region: PRK14424 1335307005945 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 1335307005946 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 1335307005947 putative NADP binding site [chemical binding]; other site 1335307005948 putative substrate binding site [chemical binding]; other site 1335307005949 active site 1335307005950 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 1335307005951 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1335307005952 active site 1335307005953 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1335307005954 LytB protein; Region: LYTB; pfam02401 1335307005955 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 1335307005956 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 1335307005957 FeS/SAM binding site; other site 1335307005958 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 1335307005959 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 1335307005960 aminotransferase; Validated; Region: PRK07046 1335307005961 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 1335307005962 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1335307005963 catalytic residue [active] 1335307005964 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 1335307005965 sequence-specific DNA binding site [nucleotide binding]; other site 1335307005966 salt bridge; other site 1335307005967 Protein of unknown function (DUF466); Region: DUF466; pfam04328 1335307005968 carbon starvation protein A; Provisional; Region: PRK15015 1335307005969 Carbon starvation protein CstA; Region: CstA; pfam02554 1335307005970 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1335307005971 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1335307005972 Uncharacterized conserved protein [Function unknown]; Region: COG5476 1335307005973 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 1335307005974 MlrC C-terminus; Region: MlrC_C; pfam07171 1335307005975 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307005976 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307005977 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 1335307005978 dimerization interface [polypeptide binding]; other site 1335307005979 ChaP, an enzyme involved in the biosynthesis of the antitumor agent chartreusin (cha); and similar proteins; Region: ChaP_like; cd08351 1335307005980 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1335307005981 metal binding site [ion binding]; metal-binding site 1335307005982 SnoaL-like domain; Region: SnoaL_2; pfam12680 1335307005983 GtrA-like protein; Region: GtrA; pfam04138 1335307005984 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1335307005985 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 1335307005986 S-adenosylmethionine binding site [chemical binding]; other site 1335307005987 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1335307005988 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1335307005989 Ligand binding site; other site 1335307005990 Putative Catalytic site; other site 1335307005991 DXD motif; other site 1335307005992 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 1335307005993 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 1335307005994 Flp/Fap pilin component; Region: Flp_Fap; cl01585 1335307005995 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 1335307005996 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 1335307005997 active site 1335307005998 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1335307005999 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 1335307006000 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1335307006001 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1335307006002 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 1335307006003 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1335307006004 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 1335307006005 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1335307006006 TadE-like protein; Region: TadE; pfam07811 1335307006007 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1335307006008 TadE-like protein; Region: TadE; pfam07811 1335307006009 AAA domain; Region: AAA_31; pfam13614 1335307006010 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 1335307006011 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 1335307006012 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1335307006013 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 1335307006014 ATP binding site [chemical binding]; other site 1335307006015 Walker A motif; other site 1335307006016 hexamer interface [polypeptide binding]; other site 1335307006017 Walker B motif; other site 1335307006018 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1335307006019 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1335307006020 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1335307006021 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1335307006022 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1335307006023 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 1335307006024 putative DNA binding site [nucleotide binding]; other site 1335307006025 putative Zn2+ binding site [ion binding]; other site 1335307006026 AsnC family; Region: AsnC_trans_reg; pfam01037 1335307006027 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1335307006028 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 1335307006029 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307006030 homodimer interface [polypeptide binding]; other site 1335307006031 catalytic residue [active] 1335307006032 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 1335307006033 homotrimer interaction site [polypeptide binding]; other site 1335307006034 putative active site [active] 1335307006035 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307006036 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307006037 trimer interface [polypeptide binding]; other site 1335307006038 eyelet of channel; other site 1335307006039 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1335307006040 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1335307006041 DNA-binding site [nucleotide binding]; DNA binding site 1335307006042 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1335307006043 FCD domain; Region: FCD; pfam07729 1335307006044 Uncharacterized conserved protein [Function unknown]; Region: COG5476 1335307006045 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 1335307006046 MlrC C-terminus; Region: MlrC_C; pfam07171 1335307006047 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1335307006048 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 1335307006049 putative substrate translocation pore; other site 1335307006050 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307006051 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307006052 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 1335307006053 dimerization interface [polypeptide binding]; other site 1335307006054 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 1335307006055 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1335307006056 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 1335307006057 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1335307006058 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 1335307006059 active site 1335307006060 DNA binding site [nucleotide binding] 1335307006061 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 1335307006062 DNA binding site [nucleotide binding] 1335307006063 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 1335307006064 nucleotide binding site [chemical binding]; other site 1335307006065 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 1335307006066 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 1335307006067 putative DNA binding site [nucleotide binding]; other site 1335307006068 putative homodimer interface [polypeptide binding]; other site 1335307006069 Predicted membrane protein [Function unknown]; Region: COG2323 1335307006070 hydroperoxidase II; Provisional; Region: katE; PRK11249 1335307006071 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 1335307006072 tetramer interface [polypeptide binding]; other site 1335307006073 heme binding pocket [chemical binding]; other site 1335307006074 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 1335307006075 domain interactions; other site 1335307006076 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 1335307006077 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 1335307006078 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1335307006079 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1335307006080 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1335307006081 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 1335307006082 dimanganese center [ion binding]; other site 1335307006083 Domain of unknown function (DUF892); Region: DUF892; pfam05974 1335307006084 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 1335307006085 MltA-interacting protein MipA; Region: MipA; cl01504 1335307006086 FOG: CBS domain [General function prediction only]; Region: COG0517 1335307006087 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_9; cd04622 1335307006088 PRC-barrel domain; Region: PRC; pfam05239 1335307006089 Response regulator receiver domain; Region: Response_reg; pfam00072 1335307006090 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 1335307006091 active site 1335307006092 phosphorylation site [posttranslational modification] 1335307006093 intermolecular recognition site; other site 1335307006094 dimerization interface [polypeptide binding]; other site 1335307006095 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1335307006096 Fe-S cluster binding site [ion binding]; other site 1335307006097 active site 1335307006098 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1335307006099 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1335307006100 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1335307006101 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1335307006102 NAD binding site [chemical binding]; other site 1335307006103 catalytic Zn binding site [ion binding]; other site 1335307006104 structural Zn binding site [ion binding]; other site 1335307006105 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 1335307006106 short chain dehydrogenase; Provisional; Region: PRK06701 1335307006107 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1335307006108 NAD binding site [chemical binding]; other site 1335307006109 metal binding site [ion binding]; metal-binding site 1335307006110 active site 1335307006111 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 1335307006112 short chain dehydrogenase; Provisional; Region: PRK07109 1335307006113 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 1335307006114 putative NAD(P) binding site [chemical binding]; other site 1335307006115 active site 1335307006116 BON domain; Region: BON; pfam04972 1335307006117 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 1335307006118 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 1335307006119 putative ADP-binding pocket [chemical binding]; other site 1335307006120 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 1335307006121 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1335307006122 NAD binding site [chemical binding]; other site 1335307006123 putative substrate binding site 2 [chemical binding]; other site 1335307006124 putative substrate binding site 1 [chemical binding]; other site 1335307006125 active site 1335307006126 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 1335307006127 PAS domain; Region: PAS_9; pfam13426 1335307006128 putative active site [active] 1335307006129 heme pocket [chemical binding]; other site 1335307006130 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1335307006131 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 1335307006132 putative active site [active] 1335307006133 heme pocket [chemical binding]; other site 1335307006134 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 1335307006135 dimer interface [polypeptide binding]; other site 1335307006136 phosphorylation site [posttranslational modification] 1335307006137 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 1335307006138 ATP binding site [chemical binding]; other site 1335307006139 Mg2+ binding site [ion binding]; other site 1335307006140 G-X-G motif; other site 1335307006141 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1335307006142 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 1335307006143 active site 1335307006144 phosphorylation site [posttranslational modification] 1335307006145 intermolecular recognition site; other site 1335307006146 dimerization interface [polypeptide binding]; other site 1335307006147 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 1335307006148 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1335307006149 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 1335307006150 active site 1335307006151 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1335307006152 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 1335307006153 active site 1335307006154 phosphorylation site [posttranslational modification] 1335307006155 intermolecular recognition site; other site 1335307006156 dimerization interface [polypeptide binding]; other site 1335307006157 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 1335307006158 Walker A motif; other site 1335307006159 ATP binding site [chemical binding]; other site 1335307006160 Walker B motif; other site 1335307006161 arginine finger; other site 1335307006162 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1335307006163 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 1335307006164 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1335307006165 Walker A motif; other site 1335307006166 ATP binding site [chemical binding]; other site 1335307006167 Walker B motif; other site 1335307006168 arginine finger; other site 1335307006169 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1335307006170 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1335307006171 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 1335307006172 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1335307006173 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1335307006174 putative active site [active] 1335307006175 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1335307006176 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 1335307006177 active site 1335307006178 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 1335307006179 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1335307006180 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 1335307006181 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1335307006182 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1335307006183 putative active site [active] 1335307006184 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 1335307006185 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 1335307006186 active site 1335307006187 motif I; other site 1335307006188 motif II; other site 1335307006189 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1335307006190 classical (c) SDRs; Region: SDR_c; cd05233 1335307006191 NAD(P) binding site [chemical binding]; other site 1335307006192 active site 1335307006193 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1335307006194 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1335307006195 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307006196 Walker A/P-loop; other site 1335307006197 ATP binding site [chemical binding]; other site 1335307006198 Q-loop/lid; other site 1335307006199 ABC transporter signature motif; other site 1335307006200 Walker B; other site 1335307006201 D-loop; other site 1335307006202 H-loop/switch region; other site 1335307006203 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1335307006204 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 1335307006205 Response regulator receiver domain; Region: Response_reg; pfam00072 1335307006206 active site 1335307006207 phosphorylation site [posttranslational modification] 1335307006208 intermolecular recognition site; other site 1335307006209 dimerization interface [polypeptide binding]; other site 1335307006210 BON domain; Region: BON; pfam04972 1335307006211 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 1335307006212 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 1335307006213 succinate dehydrogenase iron-sulfur subunit; Provisional; Region: PRK12575 1335307006214 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1335307006215 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1335307006216 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1335307006217 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1335307006218 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1335307006219 active site 1335307006220 non-prolyl cis peptide bond; other site 1335307006221 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 1335307006222 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1335307006223 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1335307006224 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 1335307006225 putative substrate translocation pore; other site 1335307006226 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 1335307006227 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1335307006228 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 1335307006229 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1335307006230 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1335307006231 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 1335307006232 E3 interaction surface; other site 1335307006233 lipoyl attachment site [posttranslational modification]; other site 1335307006234 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 1335307006235 e3 binding domain; Region: E3_binding; pfam02817 1335307006236 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1335307006237 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1335307006238 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 1335307006239 alpha subunit interface [polypeptide binding]; other site 1335307006240 TPP binding site [chemical binding]; other site 1335307006241 heterodimer interface [polypeptide binding]; other site 1335307006242 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1335307006243 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 1335307006244 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1335307006245 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 1335307006246 tetramer interface [polypeptide binding]; other site 1335307006247 TPP-binding site [chemical binding]; other site 1335307006248 heterodimer interface [polypeptide binding]; other site 1335307006249 phosphorylation loop region [posttranslational modification] 1335307006250 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 1335307006251 putative hydrophobic ligand binding site [chemical binding]; other site 1335307006252 protein interface [polypeptide binding]; other site 1335307006253 gate; other site 1335307006254 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 1335307006255 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 1335307006256 hydrophobic ligand binding site; other site 1335307006257 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307006258 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307006259 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 1335307006260 substrate binding pocket [chemical binding]; other site 1335307006261 dimerization interface [polypeptide binding]; other site 1335307006262 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1335307006263 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1335307006264 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1335307006265 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1335307006266 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1335307006267 nucleophile elbow; other site 1335307006268 Patatin phospholipase; Region: DUF3734; pfam12536 1335307006269 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 1335307006270 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 1335307006271 ribonucleotide reductase-like protein; Provisional; Region: PRK06948 1335307006272 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 1335307006273 active site 1335307006274 dimer interface [polypeptide binding]; other site 1335307006275 effector binding site; other site 1335307006276 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 1335307006277 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 1335307006278 AAA domain; Region: AAA_33; pfam13671 1335307006279 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 1335307006280 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1335307006281 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1335307006282 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1335307006283 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 1335307006284 FOG: CBS domain [General function prediction only]; Region: COG0517 1335307006285 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_9; cd04622 1335307006286 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 1335307006287 putative FMN binding site [chemical binding]; other site 1335307006288 NADPH bind site [chemical binding]; other site 1335307006289 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1335307006290 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 1335307006291 putative dimer interface [polypeptide binding]; other site 1335307006292 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307006293 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307006294 trimer interface [polypeptide binding]; other site 1335307006295 eyelet of channel; other site 1335307006296 putative acyl-CoA synthetase; Provisional; Region: PRK06018 1335307006297 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1335307006298 acyl-activating enzyme (AAE) consensus motif; other site 1335307006299 AMP binding site [chemical binding]; other site 1335307006300 active site 1335307006301 CoA binding site [chemical binding]; other site 1335307006302 AAA ATPase domain; Region: AAA_16; pfam13191 1335307006303 AAA domain; Region: AAA_22; pfam13401 1335307006304 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1335307006305 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 1335307006306 DNA binding residues [nucleotide binding] 1335307006307 dimerization interface [polypeptide binding]; other site 1335307006308 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 1335307006309 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1335307006310 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1335307006311 NADP binding site [chemical binding]; other site 1335307006312 dimer interface [polypeptide binding]; other site 1335307006313 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; cl00184 1335307006314 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1335307006315 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1335307006316 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 1335307006317 D-galactonate transporter; Region: 2A0114; TIGR00893 1335307006318 putative substrate translocation pore; other site 1335307006319 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 1335307006320 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1335307006321 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1335307006322 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 1335307006323 catalytic residues [active] 1335307006324 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1335307006325 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 1335307006326 molybdopterin cofactor binding site; other site 1335307006327 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1335307006328 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 1335307006329 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 1335307006330 putative molybdopterin cofactor binding site; other site 1335307006331 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 1335307006332 4Fe-4S binding domain; Region: Fer4; pfam00037 1335307006333 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 1335307006334 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 1335307006335 putative active site [active] 1335307006336 putative metal binding site [ion binding]; other site 1335307006337 Putative glycosyl hydrolase domain; Region: DUF4015; pfam13200 1335307006338 Transglycosylase; Region: Transgly; pfam00912 1335307006339 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1335307006340 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1335307006341 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 1335307006342 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1335307006343 catalytic residues [active] 1335307006344 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307006345 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307006346 trimer interface [polypeptide binding]; other site 1335307006347 eyelet of channel; other site 1335307006348 amidase; Provisional; Region: PRK08137 1335307006349 Amidase; Region: Amidase; cl11426 1335307006350 putative acetyltransferase YhhY; Provisional; Region: PRK10140 1335307006351 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1335307006352 Coenzyme A binding pocket [chemical binding]; other site 1335307006353 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1335307006354 putative acetyltransferase YhhY; Provisional; Region: PRK10140 1335307006355 Coenzyme A binding pocket [chemical binding]; other site 1335307006356 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1335307006357 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1335307006358 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 1335307006359 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307006360 D-loop; other site 1335307006361 H-loop/switch region; other site 1335307006362 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1335307006363 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 1335307006364 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 1335307006365 Histidine kinase; Region: HisKA_3; pfam07730 1335307006366 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1335307006367 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1335307006368 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 1335307006369 active site 1335307006370 phosphorylation site [posttranslational modification] 1335307006371 intermolecular recognition site; other site 1335307006372 dimerization interface [polypeptide binding]; other site 1335307006373 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 1335307006374 DNA binding residues [nucleotide binding] 1335307006375 dimerization interface [polypeptide binding]; other site 1335307006376 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 1335307006377 Pyrroloquinoline quinone (Coenzyme PQQ) biosynthesis protein C [Coenzyme metabolism]; Region: COG5424 1335307006378 PAS domain; Region: PAS_9; pfam13426 1335307006379 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 1335307006380 putative active site [active] 1335307006381 heme pocket [chemical binding]; other site 1335307006382 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1335307006383 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1335307006384 metal binding site [ion binding]; metal-binding site 1335307006385 active site 1335307006386 I-site; other site 1335307006387 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 1335307006388 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 1335307006389 Lipase (class 2); Region: Lipase_2; pfam01674 1335307006390 PGAP1-like protein; Region: PGAP1; pfam07819 1335307006391 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 1335307006392 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1335307006393 Domain of unknown function (DUF4345); Region: DUF4345; pfam14248 1335307006394 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1335307006395 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1335307006396 FtsX-like permease family; Region: FtsX; pfam02687 1335307006397 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1335307006398 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1335307006399 Walker A/P-loop; other site 1335307006400 ATP binding site [chemical binding]; other site 1335307006401 Q-loop/lid; other site 1335307006402 ABC transporter signature motif; other site 1335307006403 Walker B; other site 1335307006404 D-loop; other site 1335307006405 H-loop/switch region; other site 1335307006406 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1335307006407 Flavin-binding monooxygenase-like; Region: FMO-like; pfam00743 1335307006408 Cytochrome P450; Region: p450; cl12078 1335307006409 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1335307006410 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 1335307006411 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1335307006412 putative NADP binding site [chemical binding]; other site 1335307006413 active site 1335307006414 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08063 1335307006415 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 1335307006416 putative NAD(P) binding site [chemical binding]; other site 1335307006417 active site 1335307006418 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 1335307006419 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 1335307006420 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 1335307006421 active site 1335307006422 active site 1335307006423 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 1335307006424 active site 1335307006425 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 1335307006426 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1335307006427 putative NADP binding site [chemical binding]; other site 1335307006428 active site 1335307006429 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1335307006430 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 1335307006431 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 1335307006432 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 1335307006433 VacJ like lipoprotein; Region: VacJ; cl01073 1335307006434 hypothetical protein; Provisional; Region: PRK07483 1335307006435 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 1335307006436 inhibitor-cofactor binding pocket; inhibition site 1335307006437 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307006438 catalytic residue [active] 1335307006439 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 1335307006440 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 1335307006441 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1335307006442 Walker A/P-loop; other site 1335307006443 ATP binding site [chemical binding]; other site 1335307006444 Q-loop/lid; other site 1335307006445 ABC transporter signature motif; other site 1335307006446 Walker B; other site 1335307006447 D-loop; other site 1335307006448 H-loop/switch region; other site 1335307006449 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1335307006450 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 1335307006451 dimer interface [polypeptide binding]; other site 1335307006452 conserved gate region; other site 1335307006453 putative PBP binding loops; other site 1335307006454 ABC-ATPase subunit interface; other site 1335307006455 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1335307006456 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 1335307006457 substrate binding pocket [chemical binding]; other site 1335307006458 membrane-bound complex binding site; other site 1335307006459 hinge residues; other site 1335307006460 hypothetical protein; Provisional; Region: PRK07077 1335307006461 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 1335307006462 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 1335307006463 Active site cavity [active] 1335307006464 catalytic acid [active] 1335307006465 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1335307006466 active site lid residues [active] 1335307006467 substrate binding pocket [chemical binding]; other site 1335307006468 catalytic residues [active] 1335307006469 substrate-Mg2+ binding site; other site 1335307006470 aspartate-rich region 1; other site 1335307006471 aspartate-rich region 2; other site 1335307006472 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 1335307006473 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1335307006474 PAS fold; Region: PAS_4; pfam08448 1335307006475 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 1335307006476 putative active site [active] 1335307006477 heme pocket [chemical binding]; other site 1335307006478 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1335307006479 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1335307006480 metal binding site [ion binding]; metal-binding site 1335307006481 active site 1335307006482 I-site; other site 1335307006483 Response regulator receiver domain; Region: Response_reg; pfam00072 1335307006484 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 1335307006485 active site 1335307006486 phosphorylation site [posttranslational modification] 1335307006487 intermolecular recognition site; other site 1335307006488 dimerization interface [polypeptide binding]; other site 1335307006489 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1335307006490 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 1335307006491 dimer interface [polypeptide binding]; other site 1335307006492 phosphorylation site [posttranslational modification] 1335307006493 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 1335307006494 ATP binding site [chemical binding]; other site 1335307006495 Mg2+ binding site [ion binding]; other site 1335307006496 G-X-G motif; other site 1335307006497 Response regulator receiver domain; Region: Response_reg; pfam00072 1335307006498 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 1335307006499 active site 1335307006500 phosphorylation site [posttranslational modification] 1335307006501 intermolecular recognition site; other site 1335307006502 dimerization interface [polypeptide binding]; other site 1335307006503 Predicted flavoprotein [General function prediction only]; Region: COG0431 1335307006504 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1335307006505 RNA polymerase sigma factor; Provisional; Region: PRK12545 1335307006506 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1335307006507 DNA binding residues [nucleotide binding] 1335307006508 Putative zinc-finger; Region: zf-HC2; pfam13490 1335307006509 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 1335307006510 ArsC family; Region: ArsC; pfam03960 1335307006511 catalytic residues [active] 1335307006512 ParA-like protein; Provisional; Region: PHA02518 1335307006513 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 1335307006514 P-loop; other site 1335307006515 Magnesium ion binding site [ion binding]; other site 1335307006516 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1335307006517 ParB-like nuclease domain; Region: ParB; smart00470 1335307006518 Initiator Replication protein; Region: Rep_3; pfam01051 1335307006519 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 1335307006520 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1335307006521 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1335307006522 active site 1335307006523 Int/Topo IB signature motif; other site 1335307006524 catalytic residues [active] 1335307006525 DNA binding site [nucleotide binding] 1335307006526 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 1335307006527 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1335307006528 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 1335307006529 non-specific DNA binding site [nucleotide binding]; other site 1335307006530 salt bridge; other site 1335307006531 sequence-specific DNA binding site [nucleotide binding]; other site 1335307006532 Cupin domain; Region: Cupin_2; pfam07883 1335307006533 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1335307006534 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 1335307006535 substrate-cofactor binding pocket; other site 1335307006536 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307006537 catalytic residue [active] 1335307006538 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 1335307006539 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1335307006540 NAD(P) binding site [chemical binding]; other site 1335307006541 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1335307006542 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1335307006543 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1335307006544 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 1335307006545 SnoaL-like domain; Region: SnoaL_2; pfam12680 1335307006546 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_7; cd06910 1335307006547 putative active site [active] 1335307006548 Zn binding site [ion binding]; other site 1335307006549 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1335307006550 tartrate dehydrogenase; Region: TTC; TIGR02089 1335307006551 transcriptional activator TtdR; Provisional; Region: PRK09801 1335307006552 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307006553 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 1335307006554 putative effector binding pocket; other site 1335307006555 putative dimerization interface [polypeptide binding]; other site 1335307006556 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1335307006557 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1335307006558 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 1335307006559 putative C-terminal domain interface [polypeptide binding]; other site 1335307006560 putative GSH binding site (G-site) [chemical binding]; other site 1335307006561 putative dimer interface [polypeptide binding]; other site 1335307006562 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1335307006563 putative N-terminal domain interface [polypeptide binding]; other site 1335307006564 putative dimer interface [polypeptide binding]; other site 1335307006565 putative substrate binding pocket (H-site) [chemical binding]; other site 1335307006566 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1335307006567 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1335307006568 nucleophile elbow; other site 1335307006569 Patatin phospholipase; Region: DUF3734; pfam12536 1335307006570 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 1335307006571 classical (c) SDRs; Region: SDR_c; cd05233 1335307006572 NAD(P) binding site [chemical binding]; other site 1335307006573 active site 1335307006574 acetoacetate decarboxylase; Provisional; Region: PRK02265 1335307006575 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 1335307006576 active site 1335307006577 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1335307006578 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 1335307006579 FAD binding pocket [chemical binding]; other site 1335307006580 FAD binding motif [chemical binding]; other site 1335307006581 phosphate binding motif [ion binding]; other site 1335307006582 NAD binding pocket [chemical binding]; other site 1335307006583 Predicted transcriptional regulators [Transcription]; Region: COG1695 1335307006584 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1335307006585 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1335307006586 Cytochrome P450; Region: p450; cl12078 1335307006587 alpha-crystallin domain (ACD) found in alpha-crystallin-type small heat shock proteins, and a similar domain found in p23 (a cochaperone for Hsp90) and in other p23-like proteins; Region: alpha-crystallin-Hsps_p23-like; cl00175 1335307006588 Protein of unknown function (DUF692); Region: DUF692; cl01263 1335307006589 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1335307006590 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 1335307006591 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 1335307006592 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 1335307006593 FeS/SAM binding site; other site 1335307006594 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1335307006595 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 1335307006596 S-adenosylmethionine binding site [chemical binding]; other site 1335307006597 Lysine efflux permease [General function prediction only]; Region: COG1279 1335307006598 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 1335307006599 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307006600 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 1335307006601 dimerization interface [polypeptide binding]; other site 1335307006602 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1335307006603 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 1335307006604 ligand binding site [chemical binding]; other site 1335307006605 flexible hinge region; other site 1335307006606 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 1335307006607 putative switch regulator; other site 1335307006608 non-specific DNA interactions [nucleotide binding]; other site 1335307006609 DNA binding site [nucleotide binding] 1335307006610 sequence specific DNA binding site [nucleotide binding]; other site 1335307006611 putative cAMP binding site [chemical binding]; other site 1335307006612 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 1335307006613 Ligand Binding Site [chemical binding]; other site 1335307006614 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1335307006615 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1335307006616 dimer interface [polypeptide binding]; other site 1335307006617 NADP binding site [chemical binding]; other site 1335307006618 catalytic residues [active] 1335307006619 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1335307006620 Strictosidine synthase; Region: Str_synth; pfam03088 1335307006621 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 1335307006622 Transcriptional activator HlyU; Region: HlyU; cl02273 1335307006623 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 1335307006624 serine O-acetyltransferase; Region: cysE; TIGR01172 1335307006625 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 1335307006626 trimer interface [polypeptide binding]; other site 1335307006627 active site 1335307006628 substrate binding site [chemical binding]; other site 1335307006629 CoA binding site [chemical binding]; other site 1335307006630 short chain dehydrogenase; Provisional; Region: PRK09134 1335307006631 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307006632 NAD(P) binding site [chemical binding]; other site 1335307006633 active site 1335307006634 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 1335307006635 GTP cyclohydrolase I; Provisional; Region: PLN03044 1335307006636 active site 1335307006637 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307006638 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307006639 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 1335307006640 substrate binding pocket [chemical binding]; other site 1335307006641 dimerization interface [polypeptide binding]; other site 1335307006642 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 1335307006643 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1335307006644 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 1335307006645 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1335307006646 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 1335307006647 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 1335307006648 tetramer interface [polypeptide binding]; other site 1335307006649 active site 1335307006650 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1335307006651 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 1335307006652 benzoate transport; Region: 2A0115; TIGR00895 1335307006653 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 1335307006654 putative substrate translocation pore; other site 1335307006655 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 1335307006656 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1335307006657 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1335307006658 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1335307006659 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1335307006660 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 1335307006661 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 1335307006662 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 1335307006663 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1335307006664 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 1335307006665 Chromate transporter; Region: Chromate_transp; pfam02417 1335307006666 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 1335307006667 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 1335307006668 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1335307006669 RNA polymerase sigma factor; Provisional; Region: PRK11922 1335307006670 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1335307006671 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 1335307006672 DNA binding residues [nucleotide binding] 1335307006673 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 1335307006674 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1335307006675 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1335307006676 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307006677 Walker A/P-loop; other site 1335307006678 ATP binding site [chemical binding]; other site 1335307006679 Q-loop/lid; other site 1335307006680 ABC transporter signature motif; other site 1335307006681 Walker B; other site 1335307006682 D-loop; other site 1335307006683 H-loop/switch region; other site 1335307006684 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307006685 Walker A/P-loop; other site 1335307006686 ATP binding site [chemical binding]; other site 1335307006687 Q-loop/lid; other site 1335307006688 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1335307006689 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307006690 Walker A/P-loop; other site 1335307006691 ATP binding site [chemical binding]; other site 1335307006692 Q-loop/lid; other site 1335307006693 ABC transporter signature motif; other site 1335307006694 Walker B; other site 1335307006695 D-loop; other site 1335307006696 H-loop/switch region; other site 1335307006697 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 1335307006698 H-NS histone family; Region: Histone_HNS; pfam00816 1335307006699 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1335307006700 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1335307006701 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 1335307006702 putative substrate translocation pore; other site 1335307006703 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1335307006704 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 1335307006705 dimer interface [polypeptide binding]; other site 1335307006706 phosphorylation site [posttranslational modification] 1335307006707 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 1335307006708 ATP binding site [chemical binding]; other site 1335307006709 Mg2+ binding site [ion binding]; other site 1335307006710 G-X-G motif; other site 1335307006711 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1335307006712 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 1335307006713 active site 1335307006714 phosphorylation site [posttranslational modification] 1335307006715 intermolecular recognition site; other site 1335307006716 dimerization interface [polypeptide binding]; other site 1335307006717 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 1335307006718 Walker A motif; other site 1335307006719 ATP binding site [chemical binding]; other site 1335307006720 Walker B motif; other site 1335307006721 arginine finger; other site 1335307006722 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1335307006723 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1335307006724 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1335307006725 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307006726 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 1335307006727 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1335307006728 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1335307006729 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1335307006730 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1335307006731 RNA polymerase sigma factor; Reviewed; Region: PRK12527 1335307006732 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1335307006733 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1335307006734 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1335307006735 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1335307006736 Coenzyme A binding pocket [chemical binding]; other site 1335307006737 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 1335307006738 dimer interface [polypeptide binding]; other site 1335307006739 putative PBP binding loops; other site 1335307006740 ABC-ATPase subunit interface; other site 1335307006741 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1335307006742 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 1335307006743 dimer interface [polypeptide binding]; other site 1335307006744 conserved gate region; other site 1335307006745 putative PBP binding loops; other site 1335307006746 ABC-ATPase subunit interface; other site 1335307006747 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1335307006748 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1335307006749 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 1335307006750 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1335307006751 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1335307006752 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1335307006753 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 1335307006754 Protein of unknown function (DUF3274); Region: DUF3274; pfam11678 1335307006755 Protein of unknown function (DUF2875); Region: DUF2875; pfam11394 1335307006756 Uncharacterized conserved protein [Function unknown]; Region: COG4104 1335307006757 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 1335307006758 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 1335307006759 catalytic residues [active] 1335307006760 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 1335307006761 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1335307006762 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 1335307006763 Subunit I/III interface [polypeptide binding]; other site 1335307006764 D-pathway; other site 1335307006765 Subunit I/VIIc interface [polypeptide binding]; other site 1335307006766 Subunit I/IV interface [polypeptide binding]; other site 1335307006767 Subunit I/II interface [polypeptide binding]; other site 1335307006768 Low-spin heme (heme a) binding site [chemical binding]; other site 1335307006769 Subunit I/VIIa interface [polypeptide binding]; other site 1335307006770 Subunit I/VIa interface [polypeptide binding]; other site 1335307006771 Dimer interface; other site 1335307006772 Putative water exit pathway; other site 1335307006773 Binuclear center (heme a3/CuB) [ion binding]; other site 1335307006774 K-pathway; other site 1335307006775 Subunit I/Vb interface [polypeptide binding]; other site 1335307006776 Putative proton exit pathway; other site 1335307006777 Subunit I/VIb interface; other site 1335307006778 Subunit I/VIc interface [polypeptide binding]; other site 1335307006779 Electron transfer pathway; other site 1335307006780 Subunit I/VIIIb interface [polypeptide binding]; other site 1335307006781 Subunit I/VIIb interface [polypeptide binding]; other site 1335307006782 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1335307006783 trimer interface [polypeptide binding]; other site 1335307006784 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1335307006785 trimer interface [polypeptide binding]; other site 1335307006786 YadA-like C-terminal region; Region: YadA; pfam03895 1335307006787 PhoPQ-activated pathogenicity-related protein; Region: PhoPQ_related; cl01750 1335307006788 YfaZ precursor; Region: YfaZ; pfam07437 1335307006789 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1335307006790 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1335307006791 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1335307006792 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1335307006793 PapC N-terminal domain; Region: PapC_N; pfam13954 1335307006794 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1335307006795 PapC C-terminal domain; Region: PapC_C; pfam13953 1335307006796 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1335307006797 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1335307006798 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1335307006799 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1335307006800 ligand binding site [chemical binding]; other site 1335307006801 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 1335307006802 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 1335307006803 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1335307006804 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1335307006805 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 1335307006806 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 1335307006807 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1335307006808 hypothetical protein; Provisional; Region: PRK08126 1335307006809 type IV / VI secretion system protein, DotU family; Region: IV_VI_DotU; TIGR03349 1335307006810 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1335307006811 ligand binding site [chemical binding]; other site 1335307006812 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 1335307006813 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1335307006814 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1335307006815 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1335307006816 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1335307006817 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1335307006818 PAAR motif; Region: PAAR_motif; cl15808 1335307006819 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1335307006820 RHS Repeat; Region: RHS_repeat; cl11982 1335307006821 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1335307006822 RHS protein; Region: RHS; pfam03527 1335307006823 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1335307006824 Glycosyltransferase (GlcNAc); Region: GlcNAc; pfam11397 1335307006825 Fimbrial protein; Region: Fimbrial; pfam00419 1335307006826 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 1335307006827 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1335307006828 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 1335307006829 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1335307006830 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 1335307006831 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1335307006832 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 1335307006833 ImpE protein; Region: ImpE; pfam07024 1335307006834 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1335307006835 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 1335307006836 Walker A motif; other site 1335307006837 ATP binding site [chemical binding]; other site 1335307006838 Walker B motif; other site 1335307006839 arginine finger; other site 1335307006840 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 1335307006841 Walker A motif; other site 1335307006842 ATP binding site [chemical binding]; other site 1335307006843 Walker B motif; other site 1335307006844 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1335307006845 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 1335307006846 dimer interface [polypeptide binding]; other site 1335307006847 phosphorylation site [posttranslational modification] 1335307006848 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 1335307006849 ATP binding site [chemical binding]; other site 1335307006850 Mg2+ binding site [ion binding]; other site 1335307006851 G-X-G motif; other site 1335307006852 Response regulator receiver domain; Region: Response_reg; pfam00072 1335307006853 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 1335307006854 active site 1335307006855 phosphorylation site [posttranslational modification] 1335307006856 intermolecular recognition site; other site 1335307006857 dimerization interface [polypeptide binding]; other site 1335307006858 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1335307006859 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 1335307006860 active site 1335307006861 phosphorylation site [posttranslational modification] 1335307006862 intermolecular recognition site; other site 1335307006863 dimerization interface [polypeptide binding]; other site 1335307006864 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 1335307006865 DNA binding residues [nucleotide binding] 1335307006866 dimerization interface [polypeptide binding]; other site 1335307006867 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1335307006868 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 1335307006869 active site 1335307006870 phosphorylation site [posttranslational modification] 1335307006871 intermolecular recognition site; other site 1335307006872 dimerization interface [polypeptide binding]; other site 1335307006873 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 1335307006874 DNA binding residues [nucleotide binding] 1335307006875 dimerization interface [polypeptide binding]; other site 1335307006876 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 1335307006877 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1335307006878 substrate binding pocket [chemical binding]; other site 1335307006879 membrane-bound complex binding site; other site 1335307006880 hinge residues; other site 1335307006881 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1335307006882 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 1335307006883 dimer interface [polypeptide binding]; other site 1335307006884 phosphorylation site [posttranslational modification] 1335307006885 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 1335307006886 ATP binding site [chemical binding]; other site 1335307006887 Mg2+ binding site [ion binding]; other site 1335307006888 G-X-G motif; other site 1335307006889 Response regulator receiver domain; Region: Response_reg; pfam00072 1335307006890 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 1335307006891 active site 1335307006892 phosphorylation site [posttranslational modification] 1335307006893 intermolecular recognition site; other site 1335307006894 dimerization interface [polypeptide binding]; other site 1335307006895 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 1335307006896 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1335307006897 active site 1335307006898 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1335307006899 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 1335307006900 S-adenosylmethionine binding site [chemical binding]; other site 1335307006901 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1335307006902 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1335307006903 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 1335307006904 active site 1335307006905 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 1335307006906 flagellin; Provisional; Region: PRK12802 1335307006907 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1335307006908 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1335307006909 flagellar motor protein MotA; Provisional; Region: PRK12482 1335307006910 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1335307006911 hypothetical protein; Validated; Region: PRK06778 1335307006912 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1335307006913 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1335307006914 ligand binding site [chemical binding]; other site 1335307006915 Response regulator receiver domain; Region: Response_reg; pfam00072 1335307006916 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 1335307006917 active site 1335307006918 phosphorylation site [posttranslational modification] 1335307006919 intermolecular recognition site; other site 1335307006920 dimerization interface [polypeptide binding]; other site 1335307006921 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1335307006922 putative binding surface; other site 1335307006923 active site 1335307006924 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1335307006925 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 1335307006926 ATP binding site [chemical binding]; other site 1335307006927 Mg2+ binding site [ion binding]; other site 1335307006928 G-X-G motif; other site 1335307006929 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 1335307006930 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 1335307006931 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1335307006932 dimer interface [polypeptide binding]; other site 1335307006933 putative CheW interface [polypeptide binding]; other site 1335307006934 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 1335307006935 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1335307006936 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 1335307006937 CheD chemotactic sensory transduction; Region: CheD; cl00810 1335307006938 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 1335307006939 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1335307006940 active site 1335307006941 phosphorylation site [posttranslational modification] 1335307006942 intermolecular recognition site; other site 1335307006943 dimerization interface [polypeptide binding]; other site 1335307006944 CheB methylesterase; Region: CheB_methylest; pfam01339 1335307006945 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1335307006946 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 1335307006947 active site 1335307006948 phosphorylation site [posttranslational modification] 1335307006949 intermolecular recognition site; other site 1335307006950 dimerization interface [polypeptide binding]; other site 1335307006951 CheB methylesterase; Region: CheB_methylest; pfam01339 1335307006952 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1335307006953 FHIPEP family; Region: FHIPEP; pfam00771 1335307006954 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1335307006955 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1335307006956 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1335307006957 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1335307006958 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1335307006959 flagellar motor switch protein FliN; Region: fliN; TIGR02480 1335307006960 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1335307006961 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 1335307006962 flagellar MS-ring protein; Reviewed; Region: fliF; PRK07193 1335307006963 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1335307006964 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1335307006965 flagellar motor switch protein G; Reviewed; Region: fliG; PRK07194 1335307006966 FliG C-terminal domain; Region: FliG_C; pfam01706 1335307006967 flagellar assembly protein H; Provisional; Region: fliH; PRK13386 1335307006968 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 1335307006969 Flagellar assembly protein FliH; Region: FliH; pfam02108 1335307006970 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07196 1335307006971 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 1335307006972 Walker A motif; other site 1335307006973 ATP binding site [chemical binding]; other site 1335307006974 Walker B motif; other site 1335307006975 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1335307006976 flagellar capping protein; Reviewed; Region: fliD; PRK08032 1335307006977 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1335307006978 Flagellar protein FliS; Region: FliS; cl00654 1335307006979 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1335307006980 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1335307006981 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1335307006982 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1335307006983 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 1335307006984 DNA binding residues [nucleotide binding] 1335307006985 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 1335307006986 FlgN protein; Region: FlgN; pfam05130 1335307006987 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 1335307006988 SAF-like; Region: SAF_2; pfam13144 1335307006989 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1335307006990 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 1335307006991 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1335307006992 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK12685 1335307006993 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK06802 1335307006994 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1335307006995 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1335307006996 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 1335307006997 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1335307006998 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1335307006999 flagellar hook protein FlgE; Validated; Region: flgE; PRK06803 1335307007000 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1335307007001 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1335307007002 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1335307007003 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 1335307007004 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1335307007005 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 1335307007006 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1335307007007 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 1335307007008 Flagellar L-ring protein; Region: FlgH; pfam02107 1335307007009 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1335307007010 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1335307007011 Rod binding protein; Region: Rod-binding; cl01626 1335307007012 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07191 1335307007013 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1335307007014 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 1335307007015 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1335307007016 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 1335307007017 DNA binding site [nucleotide binding] 1335307007018 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1335307007019 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 1335307007020 active site 1335307007021 phosphorylation site [posttranslational modification] 1335307007022 intermolecular recognition site; other site 1335307007023 dimerization interface [polypeptide binding]; other site 1335307007024 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 1335307007025 DNA binding residues [nucleotide binding] 1335307007026 dimerization interface [polypeptide binding]; other site 1335307007027 H-NS histone family; Region: Histone_HNS; pfam00816 1335307007028 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1335307007029 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1335307007030 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 1335307007031 putative substrate translocation pore; other site 1335307007032 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1335307007033 pyruvate kinase; Provisional; Region: PRK06247 1335307007034 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 1335307007035 domain interfaces; other site 1335307007036 active site 1335307007037 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1335307007038 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1335307007039 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1335307007040 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1335307007041 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1335307007042 acyl-activating enzyme (AAE) consensus motif; other site 1335307007043 AMP binding site [chemical binding]; other site 1335307007044 active site 1335307007045 CoA binding site [chemical binding]; other site 1335307007046 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307007047 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 1335307007048 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1335307007049 extended (e) SDRs; Region: SDR_e; cd08946 1335307007050 NAD(P) binding site [chemical binding]; other site 1335307007051 active site 1335307007052 substrate binding site [chemical binding]; other site 1335307007053 SnoaL-like domain; Region: SnoaL_2; pfam12680 1335307007054 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 1335307007055 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 1335307007056 S-adenosylmethionine binding site [chemical binding]; other site 1335307007057 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 1335307007058 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 1335307007059 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1335307007060 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1335307007061 metal binding site [ion binding]; metal-binding site 1335307007062 active site 1335307007063 I-site; other site 1335307007064 mercuric reductase; Validated; Region: PRK06370 1335307007065 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1335307007066 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1335307007067 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 1335307007068 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1335307007069 putative ligand binding site [chemical binding]; other site 1335307007070 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1335307007071 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 1335307007072 TM-ABC transporter signature motif; other site 1335307007073 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1335307007074 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1335307007075 Walker A/P-loop; other site 1335307007076 ATP binding site [chemical binding]; other site 1335307007077 Q-loop/lid; other site 1335307007078 ABC transporter signature motif; other site 1335307007079 Walker B; other site 1335307007080 D-loop; other site 1335307007081 H-loop/switch region; other site 1335307007082 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1335307007083 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1335307007084 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1335307007085 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1335307007086 Glycoside hydrolase family 15, N-terminal domain; Region: GH15_N; cd07430 1335307007087 Domain interface; other site 1335307007088 glucan 1,4-alpha-glucosidase; Region: glucan_glucosid; TIGR01535 1335307007089 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 1335307007090 Alpha-amylase, C-terminal CBM20 (carbohydrate-binding module, family 20) domain. This domain is found in several bacterial and fungal alpha-amylases including the maltopentaose-forming amylases (G5-amylases). Most alpha-amylases have, in addition to the...; Region: CBM20_alpha_amylase; cd05808 1335307007091 starch-binding site 2 [chemical binding]; other site 1335307007092 starch-binding site 1 [chemical binding]; other site 1335307007093 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1335307007094 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 1335307007095 ATP binding site [chemical binding]; other site 1335307007096 Mg++ binding site [ion binding]; other site 1335307007097 motif III; other site 1335307007098 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 1335307007099 nucleotide binding region [chemical binding]; other site 1335307007100 ATP-binding site [chemical binding]; other site 1335307007101 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 1335307007102 putative RNA binding site [nucleotide binding]; other site 1335307007103 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307007104 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307007105 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 1335307007106 metabolite-proton symporter; Region: 2A0106; TIGR00883 1335307007107 putative substrate translocation pore; other site 1335307007108 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1335307007109 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1335307007110 metal binding site [ion binding]; metal-binding site 1335307007111 putative dimer interface [polypeptide binding]; other site 1335307007112 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 1335307007113 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307007114 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 1335307007115 dimerization interface [polypeptide binding]; other site 1335307007116 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 1335307007117 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 1335307007118 putative di-iron ligands [ion binding]; other site 1335307007119 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1335307007120 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 1335307007121 substrate binding pocket [chemical binding]; other site 1335307007122 membrane-bound complex binding site; other site 1335307007123 hinge residues; other site 1335307007124 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1335307007125 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1335307007126 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307007127 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307007128 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 1335307007129 dimerization interface [polypeptide binding]; other site 1335307007130 short chain dehydrogenase; Provisional; Region: PRK07023 1335307007131 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307007132 NAD(P) binding site [chemical binding]; other site 1335307007133 active site 1335307007134 SnoaL-like domain; Region: SnoaL_2; pfam12680 1335307007135 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1335307007136 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 1335307007137 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 1335307007138 Pyoverdine/dityrosine biosynthesis protein [Secondary metabolites biosynthesis, transport, and catabolism]; Region: DIT1; COG3207 1335307007139 Pyoverdine/dityrosine biosynthesis protein; Region: DIT1_PvcA; pfam05141 1335307007140 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1335307007141 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; cl00184 1335307007142 substrate binding pocket [chemical binding]; other site 1335307007143 active site 1335307007144 iron coordination sites [ion binding]; other site 1335307007145 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 1335307007146 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 1335307007147 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 1335307007148 active site 1335307007149 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 1335307007150 dimer interface [polypeptide binding]; other site 1335307007151 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 1335307007152 Ligand Binding Site [chemical binding]; other site 1335307007153 Molecular Tunnel; other site 1335307007154 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1335307007155 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1335307007156 NADP binding site [chemical binding]; other site 1335307007157 dimer interface [polypeptide binding]; other site 1335307007158 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 1335307007159 putative active site [active] 1335307007160 putative metal binding site [ion binding]; other site 1335307007161 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307007162 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307007163 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 1335307007164 putative effector binding pocket; other site 1335307007165 dimerization interface [polypeptide binding]; other site 1335307007166 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 1335307007167 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1335307007168 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1335307007169 hypothetical protein; Provisional; Region: PRK08126 1335307007170 type IV / VI secretion system protein, DotU family; Region: IV_VI_DotU; TIGR03349 1335307007171 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1335307007172 ligand binding site [chemical binding]; other site 1335307007173 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 1335307007174 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1335307007175 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 1335307007176 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1335307007177 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 1335307007178 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1335307007179 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1335307007180 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 1335307007181 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1335307007182 Walker A motif; other site 1335307007183 ATP binding site [chemical binding]; other site 1335307007184 Walker B motif; other site 1335307007185 arginine finger; other site 1335307007186 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 1335307007187 Walker A motif; other site 1335307007188 ATP binding site [chemical binding]; other site 1335307007189 Walker B motif; other site 1335307007190 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1335307007191 ImpE protein; Region: ImpE; pfam07024 1335307007192 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1335307007193 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 1335307007194 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1335307007195 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 1335307007196 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 1335307007197 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1335307007198 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1335307007199 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1335307007200 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1335307007201 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 1335307007202 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1335307007203 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1335307007204 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1335307007205 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1335307007206 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1335307007207 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1335307007208 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1335307007209 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1335307007210 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1335307007211 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 1335307007212 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 1335307007213 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1335307007214 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307007215 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307007216 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_3; cd08461 1335307007217 putative substrate binding pocket [chemical binding]; other site 1335307007218 putative dimerization interface [polypeptide binding]; other site 1335307007219 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1335307007220 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1335307007221 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1335307007222 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307007223 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 1335307007224 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 1335307007225 homodimer interface [polypeptide binding]; other site 1335307007226 substrate-cofactor binding pocket; other site 1335307007227 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307007228 catalytic residue [active] 1335307007229 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1335307007230 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 1335307007231 dimer interface [polypeptide binding]; other site 1335307007232 putative metal binding site [ion binding]; other site 1335307007233 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 1335307007234 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 1335307007235 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1335307007236 acetyl-CoA carboxylase biotin carboxylase subunit; Provisional; Region: PRK12833 1335307007237 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1335307007238 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1335307007239 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1335307007240 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 1335307007241 carboxyltransferase (CT) interaction site; other site 1335307007242 biotinylation site [posttranslational modification]; other site 1335307007243 uncharacterized proteins similar to the Aspergillus nidulans lactam utilization protein LamB; Region: LamB_YcsF_like_2; cd11664 1335307007244 putative active site [active] 1335307007245 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307007246 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307007247 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 1335307007248 putative substrate binding pocket [chemical binding]; other site 1335307007249 dimerization interface [polypeptide binding]; other site 1335307007250 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1335307007251 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 1335307007252 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 1335307007253 active site 1335307007254 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1335307007255 TAP-like protein; Region: Abhydrolase_4; pfam08386 1335307007256 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 1335307007257 S-adenosylmethionine binding site [chemical binding]; other site 1335307007258 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 1335307007259 dimerization interface [polypeptide binding]; other site 1335307007260 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1335307007261 dimer interface [polypeptide binding]; other site 1335307007262 putative CheW interface [polypeptide binding]; other site 1335307007263 Propionate catabolism activator; Region: PrpR_N; pfam06506 1335307007264 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 1335307007265 putative active site [active] 1335307007266 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 1335307007267 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1335307007268 Walker A motif; other site 1335307007269 ATP binding site [chemical binding]; other site 1335307007270 Walker B motif; other site 1335307007271 arginine finger; other site 1335307007272 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1335307007273 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 1335307007274 tetramer interface [polypeptide binding]; other site 1335307007275 active site 1335307007276 Mg2+/Mn2+ binding site [ion binding]; other site 1335307007277 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1335307007278 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 1335307007279 dimer interface [polypeptide binding]; other site 1335307007280 active site 1335307007281 citrylCoA binding site [chemical binding]; other site 1335307007282 oxalacetate/citrate binding site [chemical binding]; other site 1335307007283 coenzyme A binding site [chemical binding]; other site 1335307007284 catalytic triad [active] 1335307007285 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 1335307007286 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1335307007287 substrate binding site [chemical binding]; other site 1335307007288 ligand binding site [chemical binding]; other site 1335307007289 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 1335307007290 substrate binding site [chemical binding]; other site 1335307007291 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 1335307007292 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 1335307007293 CoenzymeA binding site [chemical binding]; other site 1335307007294 subunit interaction site [polypeptide binding]; other site 1335307007295 PHB binding site; other site 1335307007296 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 1335307007297 Domain of unknown function (DUF1842); Region: DUF1842; pfam08896 1335307007298 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 1335307007299 Domain of unknown function (DUF1842); Region: DUF1842; pfam08896 1335307007300 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 1335307007301 Y_X(10)_GDL-associated radical SAM protein; Region: rad_SAM_trio; TIGR03913 1335307007302 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 1335307007303 FeS/SAM binding site; other site 1335307007304 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1335307007305 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 1335307007306 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 1335307007307 dimer interface [polypeptide binding]; other site 1335307007308 ligand binding site [chemical binding]; other site 1335307007309 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1335307007310 dimer interface [polypeptide binding]; other site 1335307007311 putative CheW interface [polypeptide binding]; other site 1335307007312 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 1335307007313 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1335307007314 putative substrate translocation pore; other site 1335307007315 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 1335307007316 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1335307007317 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307007318 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1335307007319 dimerization interface [polypeptide binding]; other site 1335307007320 substrate binding pocket [chemical binding]; other site 1335307007321 dimerization interface [polypeptide binding]; other site 1335307007322 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 1335307007323 putative active cleft [active] 1335307007324 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1335307007325 MgtC family; Region: MgtC; pfam02308 1335307007326 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1335307007327 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1335307007328 Coenzyme A binding pocket [chemical binding]; other site 1335307007329 Protein of unknown function (DUF4087); Region: DUF4087; pfam13316 1335307007330 Heavy-metal-associated domain; Region: HMA; pfam00403 1335307007331 metal-binding site [ion binding] 1335307007332 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 1335307007333 metal-binding site [ion binding] 1335307007334 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1335307007335 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 1335307007336 metal-binding site [ion binding] 1335307007337 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1335307007338 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 1335307007339 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1335307007340 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1335307007341 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 1335307007342 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1335307007343 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1335307007344 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1335307007345 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1335307007346 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 1335307007347 Sulfatase; Region: Sulfatase; cl17466 1335307007348 Sulfatase; Region: Sulfatase; cl17466 1335307007349 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1335307007350 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 1335307007351 active site 1335307007352 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1335307007353 active site lid residues [active] 1335307007354 substrate binding pocket [chemical binding]; other site 1335307007355 catalytic residues [active] 1335307007356 substrate-Mg2+ binding site; other site 1335307007357 aspartate-rich region 1; other site 1335307007358 aspartate-rich region 2; other site 1335307007359 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307007360 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 1335307007361 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1335307007362 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1335307007363 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1335307007364 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1335307007365 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 1335307007366 tetramer interface [polypeptide binding]; other site 1335307007367 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307007368 catalytic residue [active] 1335307007369 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 1335307007370 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307007371 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 1335307007372 putative dimerization interface [polypeptide binding]; other site 1335307007373 Transglycosylase; Region: Transgly; pfam00912 1335307007374 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1335307007375 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1335307007376 Predicted membrane protein [Function unknown]; Region: COG2860 1335307007377 UPF0126 domain; Region: UPF0126; pfam03458 1335307007378 UPF0126 domain; Region: UPF0126; pfam03458 1335307007379 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13547 1335307007380 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1335307007381 Walker A/P-loop; other site 1335307007382 ATP binding site [chemical binding]; other site 1335307007383 Q-loop/lid; other site 1335307007384 ABC transporter signature motif; other site 1335307007385 Walker B; other site 1335307007386 D-loop; other site 1335307007387 H-loop/switch region; other site 1335307007388 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 1335307007389 putative PBP binding regions; other site 1335307007390 ABC-ATPase subunit interface; other site 1335307007391 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 1335307007392 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1335307007393 intersubunit interface [polypeptide binding]; other site 1335307007394 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 1335307007395 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1335307007396 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1335307007397 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1335307007398 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1335307007399 N-terminal plug; other site 1335307007400 ligand-binding site [chemical binding]; other site 1335307007401 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1335307007402 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307007403 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 1335307007404 dimerization interface [polypeptide binding]; other site 1335307007405 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 1335307007406 dimer interface [polypeptide binding]; other site 1335307007407 conserved gate region; other site 1335307007408 putative PBP binding loops; other site 1335307007409 ABC-ATPase subunit interface; other site 1335307007410 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1335307007411 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1335307007412 Walker A/P-loop; other site 1335307007413 ATP binding site [chemical binding]; other site 1335307007414 Q-loop/lid; other site 1335307007415 ABC transporter signature motif; other site 1335307007416 Walker B; other site 1335307007417 D-loop; other site 1335307007418 H-loop/switch region; other site 1335307007419 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1335307007420 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1335307007421 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 1335307007422 dimer interface [polypeptide binding]; other site 1335307007423 conserved gate region; other site 1335307007424 putative PBP binding loops; other site 1335307007425 ABC-ATPase subunit interface; other site 1335307007426 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1335307007427 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307007428 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307007429 trimer interface [polypeptide binding]; other site 1335307007430 eyelet of channel; other site 1335307007431 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1335307007432 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 1335307007433 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1335307007434 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 1335307007435 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1335307007436 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1335307007437 Walker A/P-loop; other site 1335307007438 ATP binding site [chemical binding]; other site 1335307007439 Q-loop/lid; other site 1335307007440 ABC transporter signature motif; other site 1335307007441 Walker B; other site 1335307007442 D-loop; other site 1335307007443 H-loop/switch region; other site 1335307007444 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1335307007445 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1335307007446 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 1335307007447 TM-ABC transporter signature motif; other site 1335307007448 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 1335307007449 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1335307007450 putative ligand binding site [chemical binding]; other site 1335307007451 short chain dehydrogenase; Provisional; Region: PRK06841 1335307007452 classical (c) SDRs; Region: SDR_c; cd05233 1335307007453 NAD(P) binding site [chemical binding]; other site 1335307007454 active site 1335307007455 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1335307007456 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH2; cd08256 1335307007457 putative NAD(P) binding site [chemical binding]; other site 1335307007458 catalytic Zn binding site [ion binding]; other site 1335307007459 structural Zn binding site [ion binding]; other site 1335307007460 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 1335307007461 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1335307007462 DAK2 domain; Region: Dak2; cl03685 1335307007463 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 1335307007464 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307007465 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307007466 trimer interface [polypeptide binding]; other site 1335307007467 eyelet of channel; other site 1335307007468 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1335307007469 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1335307007470 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 1335307007471 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1335307007472 active site 1335307007473 Zn binding site [ion binding]; other site 1335307007474 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 1335307007475 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1335307007476 substrate binding pocket [chemical binding]; other site 1335307007477 membrane-bound complex binding site; other site 1335307007478 hinge residues; other site 1335307007479 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 1335307007480 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307007481 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 1335307007482 dimerization interface [polypeptide binding]; other site 1335307007483 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1335307007484 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1335307007485 metal binding site [ion binding]; metal-binding site 1335307007486 putative dimer interface [polypeptide binding]; other site 1335307007487 metabolite-proton symporter; Region: 2A0106; TIGR00883 1335307007488 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 1335307007489 putative substrate translocation pore; other site 1335307007490 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1335307007491 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1335307007492 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1335307007493 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1335307007494 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1335307007495 Bacterial transcriptional regulator; Region: IclR; pfam01614 1335307007496 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1335307007497 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 1335307007498 dimer interface [polypeptide binding]; other site 1335307007499 active site 1335307007500 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 1335307007501 PAS domain; Region: PAS_9; pfam13426 1335307007502 putative active site [active] 1335307007503 heme pocket [chemical binding]; other site 1335307007504 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1335307007505 dimer interface [polypeptide binding]; other site 1335307007506 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1335307007507 putative CheW interface [polypeptide binding]; other site 1335307007508 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 1335307007509 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 1335307007510 S-adenosylmethionine binding site [chemical binding]; other site 1335307007511 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 1335307007512 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1335307007513 hydrophobic ligand binding site; other site 1335307007514 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1335307007515 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 1335307007516 [2Fe-2S] cluster binding site [ion binding]; other site 1335307007517 succinic semialdehyde dehydrogenase; Region: PLN02278 1335307007518 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1335307007519 tetramerization interface [polypeptide binding]; other site 1335307007520 NAD(P) binding site [chemical binding]; other site 1335307007521 catalytic residues [active] 1335307007522 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 1335307007523 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 1335307007524 inhibitor-cofactor binding pocket; inhibition site 1335307007525 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307007526 catalytic residue [active] 1335307007527 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1335307007528 DNA-binding site [nucleotide binding]; DNA binding site 1335307007529 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 1335307007530 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 1335307007531 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307007532 homodimer interface [polypeptide binding]; other site 1335307007533 catalytic residue [active] 1335307007534 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 1335307007535 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1335307007536 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1335307007537 Bacterial transcriptional regulator; Region: IclR; pfam01614 1335307007538 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 1335307007539 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 1335307007540 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 1335307007541 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 1335307007542 EamA-like transporter family; Region: EamA; cl17759 1335307007543 selenophosphate synthetase; Provisional; Region: PRK00943 1335307007544 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 1335307007545 dimerization interface [polypeptide binding]; other site 1335307007546 putative ATP binding site [chemical binding]; other site 1335307007547 Purine nucleoside permease (NUP); Region: NUP; pfam06516 1335307007548 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 1335307007549 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307007550 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307007551 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1335307007552 putative effector binding pocket; other site 1335307007553 putative dimerization interface [polypeptide binding]; other site 1335307007554 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1335307007555 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1335307007556 substrate binding pocket [chemical binding]; other site 1335307007557 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1335307007558 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1335307007559 HlyD family secretion protein; Region: HlyD_3; pfam13437 1335307007560 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1335307007561 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1335307007562 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1335307007563 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1335307007564 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1335307007565 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1335307007566 DNA-binding site [nucleotide binding]; DNA binding site 1335307007567 FCD domain; Region: FCD; pfam07729 1335307007568 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1335307007569 Coenzyme A binding pocket [chemical binding]; other site 1335307007570 Membrane transport protein; Region: Mem_trans; cl09117 1335307007571 acyl-CoA synthetase; Validated; Region: PRK05850 1335307007572 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 1335307007573 acyl-activating enzyme (AAE) consensus motif; other site 1335307007574 active site 1335307007575 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1335307007576 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1335307007577 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 1335307007578 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1335307007579 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1335307007580 acyl-activating enzyme (AAE) consensus motif; other site 1335307007581 AMP binding site [chemical binding]; other site 1335307007582 active site 1335307007583 CoA binding site [chemical binding]; other site 1335307007584 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1335307007585 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1335307007586 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1335307007587 catalytic residue [active] 1335307007588 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 1335307007589 Ketol-acid reductoisomerase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvC; COG0059 1335307007590 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1335307007591 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1335307007592 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 1335307007593 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1335307007594 active site 1335307007595 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307007596 Condensation domain; Region: Condensation; pfam00668 1335307007597 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1335307007598 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1335307007599 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307007600 thioester reductase domain; Region: Thioester-redct; TIGR01746 1335307007601 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 1335307007602 putative NAD(P) binding site [chemical binding]; other site 1335307007603 active site 1335307007604 putative substrate binding site [chemical binding]; other site 1335307007605 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 1335307007606 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1335307007607 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1335307007608 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1335307007609 active site 1335307007610 metal binding site [ion binding]; metal-binding site 1335307007611 RNA polymerase sigma factor; Provisional; Region: PRK12533 1335307007612 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1335307007613 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 1335307007614 DNA binding residues [nucleotide binding] 1335307007615 Putative zinc-finger; Region: zf-HC2; pfam13490 1335307007616 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1335307007617 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1335307007618 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 1335307007619 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1335307007620 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1335307007621 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1335307007622 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1335307007623 replicative DNA helicase; Provisional; Region: PRK07004 1335307007624 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1335307007625 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 1335307007626 Walker A motif; other site 1335307007627 ATP binding site [chemical binding]; other site 1335307007628 Walker B motif; other site 1335307007629 DNA binding loops [nucleotide binding] 1335307007630 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 1335307007631 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1335307007632 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1335307007633 NlpC/P60 family; Region: NLPC_P60; pfam00877 1335307007634 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1335307007635 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1335307007636 putative active site [active] 1335307007637 PhoH-like protein; Region: PhoH; pfam02562 1335307007638 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 1335307007639 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1335307007640 catalytic triad [active] 1335307007641 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 1335307007642 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 1335307007643 putative active site [active] 1335307007644 putative catalytic site [active] 1335307007645 putative Zn binding site [ion binding]; other site 1335307007646 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 1335307007647 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 1335307007648 NAD binding site [chemical binding]; other site 1335307007649 substrate binding site [chemical binding]; other site 1335307007650 active site 1335307007651 putative formyltransferase; Provisional; Region: PRK06988 1335307007652 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1335307007653 active site 1335307007654 substrate binding site [chemical binding]; other site 1335307007655 cosubstrate binding site; other site 1335307007656 catalytic site [active] 1335307007657 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 1335307007658 active site 1335307007659 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1335307007660 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1335307007661 Ligand binding site; other site 1335307007662 Putative Catalytic site; other site 1335307007663 DXD motif; other site 1335307007664 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1335307007665 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 1335307007666 inhibitor-cofactor binding pocket; inhibition site 1335307007667 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307007668 catalytic residue [active] 1335307007669 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 1335307007670 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1335307007671 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1335307007672 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 1335307007673 aminotransferase AlaT; Validated; Region: PRK09265 1335307007674 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 1335307007675 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307007676 homodimer interface [polypeptide binding]; other site 1335307007677 catalytic residue [active] 1335307007678 homoserine dehydrogenase; Provisional; Region: PRK06349 1335307007679 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1335307007680 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1335307007681 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 1335307007682 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1335307007683 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 1335307007684 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307007685 catalytic residue [active] 1335307007686 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1335307007687 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 1335307007688 dimer interface [polypeptide binding]; other site 1335307007689 putative functional site; other site 1335307007690 putative MPT binding site; other site 1335307007691 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1335307007692 MoaE interaction surface [polypeptide binding]; other site 1335307007693 MoeB interaction surface [polypeptide binding]; other site 1335307007694 thiocarboxylated glycine; other site 1335307007695 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 1335307007696 MoaE homodimer interface [polypeptide binding]; other site 1335307007697 MoaD interaction [polypeptide binding]; other site 1335307007698 active site residues [active] 1335307007699 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 1335307007700 apolar tunnel; other site 1335307007701 heme binding site [chemical binding]; other site 1335307007702 dimerization interface [polypeptide binding]; other site 1335307007703 Transcriptional regulator; Region: Rrf2; cl17282 1335307007704 Rrf2 family protein; Region: rrf2_super; TIGR00738 1335307007705 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1335307007706 Clp amino terminal domain; Region: Clp_N; pfam02861 1335307007707 Clp amino terminal domain; Region: Clp_N; pfam02861 1335307007708 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 1335307007709 Walker A motif; other site 1335307007710 ATP binding site [chemical binding]; other site 1335307007711 Walker B motif; other site 1335307007712 arginine finger; other site 1335307007713 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 1335307007714 Walker A motif; other site 1335307007715 ATP binding site [chemical binding]; other site 1335307007716 Walker B motif; other site 1335307007717 arginine finger; other site 1335307007718 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1335307007719 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 1335307007720 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1335307007721 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1335307007722 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1335307007723 DNA binding residues [nucleotide binding] 1335307007724 putative dimer interface [polypeptide binding]; other site 1335307007725 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1335307007726 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1335307007727 putative efflux protein, MATE family; Region: matE; TIGR00797 1335307007728 cation binding site [ion binding]; other site 1335307007729 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1335307007730 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1335307007731 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 1335307007732 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 1335307007733 putative substrate translocation pore; other site 1335307007734 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1335307007735 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1335307007736 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1335307007737 DNA binding residues [nucleotide binding] 1335307007738 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1335307007739 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 1335307007740 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 1335307007741 RNA binding site [nucleotide binding]; other site 1335307007742 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 1335307007743 multimer interface [polypeptide binding]; other site 1335307007744 Walker A motif; other site 1335307007745 ATP binding site [chemical binding]; other site 1335307007746 Walker B motif; other site 1335307007747 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 1335307007748 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1335307007749 catalytic residues [active] 1335307007750 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1335307007751 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 1335307007752 Walker A motif; other site 1335307007753 ATP binding site [chemical binding]; other site 1335307007754 Walker B motif; other site 1335307007755 arginine finger; other site 1335307007756 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1335307007757 hypothetical protein; Validated; Region: PRK00153 1335307007758 recombination protein RecR; Reviewed; Region: recR; PRK00076 1335307007759 RecR protein; Region: RecR; pfam02132 1335307007760 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 1335307007761 putative active site [active] 1335307007762 putative metal-binding site [ion binding]; other site 1335307007763 tetramer interface [polypeptide binding]; other site 1335307007764 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1335307007765 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1335307007766 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1335307007767 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1335307007768 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 1335307007769 S-adenosylmethionine binding site [chemical binding]; other site 1335307007770 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1335307007771 Peptidase family M23; Region: Peptidase_M23; pfam01551 1335307007772 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 1335307007773 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1335307007774 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1335307007775 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 1335307007776 DNA binding residues [nucleotide binding] 1335307007777 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 1335307007778 active site 1335307007779 catalytic site [active] 1335307007780 substrate binding site [chemical binding]; other site 1335307007781 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 1335307007782 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1335307007783 putative catalytic site [active] 1335307007784 putative metal binding site [ion binding]; other site 1335307007785 putative phosphate binding site [ion binding]; other site 1335307007786 putative catalytic site [active] 1335307007787 putative phosphate binding site [ion binding]; other site 1335307007788 putative metal binding site [ion binding]; other site 1335307007789 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1335307007790 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 1335307007791 S-adenosylmethionine binding site [chemical binding]; other site 1335307007792 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1335307007793 YccA-like proteins; Region: YccA_like; cd10433 1335307007794 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 1335307007795 active site 1335307007796 multimer interface [polypeptide binding]; other site 1335307007797 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1335307007798 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 1335307007799 FeS/SAM binding site; other site 1335307007800 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 1335307007801 non-specific DNA binding site [nucleotide binding]; other site 1335307007802 salt bridge; other site 1335307007803 sequence-specific DNA binding site [nucleotide binding]; other site 1335307007804 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1335307007805 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1335307007806 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1335307007807 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1335307007808 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1335307007809 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 1335307007810 dimer interface [polypeptide binding]; other site 1335307007811 motif 1; other site 1335307007812 active site 1335307007813 motif 2; other site 1335307007814 motif 3; other site 1335307007815 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 1335307007816 anticodon binding site; other site 1335307007817 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1335307007818 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1335307007819 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 1335307007820 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1335307007821 Trp docking motif [polypeptide binding]; other site 1335307007822 active site 1335307007823 GTP-binding protein Der; Reviewed; Region: PRK00093 1335307007824 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1335307007825 G1 box; other site 1335307007826 GTP/Mg2+ binding site [chemical binding]; other site 1335307007827 Switch I region; other site 1335307007828 G2 box; other site 1335307007829 Switch II region; other site 1335307007830 G3 box; other site 1335307007831 G4 box; other site 1335307007832 G5 box; other site 1335307007833 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1335307007834 G1 box; other site 1335307007835 GTP/Mg2+ binding site [chemical binding]; other site 1335307007836 Switch I region; other site 1335307007837 G2 box; other site 1335307007838 G3 box; other site 1335307007839 Switch II region; other site 1335307007840 G4 box; other site 1335307007841 G5 box; other site 1335307007842 bacterial Hfq-like; Region: Hfq; cd01716 1335307007843 hexamer interface [polypeptide binding]; other site 1335307007844 Sm1 motif; other site 1335307007845 RNA binding site [nucleotide binding]; other site 1335307007846 Sm2 motif; other site 1335307007847 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1335307007848 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1335307007849 HflX GTPase family; Region: HflX; cd01878 1335307007850 G1 box; other site 1335307007851 GTP/Mg2+ binding site [chemical binding]; other site 1335307007852 Switch I region; other site 1335307007853 G2 box; other site 1335307007854 G3 box; other site 1335307007855 Switch II region; other site 1335307007856 G4 box; other site 1335307007857 G5 box; other site 1335307007858 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1335307007859 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 1335307007860 HflK protein; Region: hflK; TIGR01933 1335307007861 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 1335307007862 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 1335307007863 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 1335307007864 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 1335307007865 dimer interface [polypeptide binding]; other site 1335307007866 motif 1; other site 1335307007867 active site 1335307007868 motif 2; other site 1335307007869 motif 3; other site 1335307007870 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1335307007871 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 1335307007872 GDP-binding site [chemical binding]; other site 1335307007873 ACT binding site; other site 1335307007874 IMP binding site; other site 1335307007875 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 1335307007876 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1335307007877 active site 1335307007878 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1335307007879 potassium uptake protein; Region: kup; TIGR00794 1335307007880 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1335307007881 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1335307007882 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1335307007883 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 1335307007884 RNA binding site [nucleotide binding]; other site 1335307007885 Protein of unknown function (DUF465); Region: DUF465; pfam04325 1335307007886 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1335307007887 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 1335307007888 DEAD_2; Region: DEAD_2; pfam06733 1335307007889 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1335307007890 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1335307007891 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1335307007892 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 1335307007893 RNA binding surface [nucleotide binding]; other site 1335307007894 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1335307007895 active site 1335307007896 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1335307007897 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1335307007898 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 1335307007899 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1335307007900 putative acyltransferase; Provisional; Region: PRK05790 1335307007901 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 1335307007902 dimer interface [polypeptide binding]; other site 1335307007903 active site 1335307007904 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 1335307007905 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1335307007906 NAD(P) binding site [chemical binding]; other site 1335307007907 homotetramer interface [polypeptide binding]; other site 1335307007908 homodimer interface [polypeptide binding]; other site 1335307007909 active site 1335307007910 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 1335307007911 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 1335307007912 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 1335307007913 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1335307007914 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1335307007915 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 1335307007916 FeS/SAM binding site; other site 1335307007917 TRAM domain; Region: TRAM; cl01282 1335307007918 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1335307007919 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 1335307007920 substrate binding site [chemical binding]; other site 1335307007921 ATP binding site [chemical binding]; other site 1335307007922 beta-ketothiolase; Provisional; Region: PRK09051 1335307007923 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 1335307007924 dimer interface [polypeptide binding]; other site 1335307007925 active site 1335307007926 cystathionine beta-lyase; Provisional; Region: PRK07050 1335307007927 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 1335307007928 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1335307007929 catalytic residue [active] 1335307007930 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 1335307007931 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1335307007932 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 1335307007933 motif II; other site 1335307007934 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 1335307007935 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 1335307007936 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307007937 Walker A/P-loop; other site 1335307007938 ATP binding site [chemical binding]; other site 1335307007939 Q-loop/lid; other site 1335307007940 ABC transporter signature motif; other site 1335307007941 Walker B; other site 1335307007942 D-loop; other site 1335307007943 H-loop/switch region; other site 1335307007944 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1335307007945 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1335307007946 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1335307007947 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1335307007948 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1335307007949 ABC transporter; Region: ABC_tran_2; pfam12848 1335307007950 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1335307007951 Burkholderia Lethal Factor 1; Region: BPSL1549; cd12812 1335307007952 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 1335307007953 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1335307007954 NAD binding site [chemical binding]; other site 1335307007955 catalytic residues [active] 1335307007956 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1335307007957 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 1335307007958 FMN binding site [chemical binding]; other site 1335307007959 substrate binding site [chemical binding]; other site 1335307007960 putative catalytic residue [active] 1335307007961 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1335307007962 Predicted Fe-S protein [General function prediction only]; Region: COG3313 1335307007963 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 1335307007964 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1335307007965 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1335307007966 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1335307007967 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 1335307007968 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307007969 Walker A/P-loop; other site 1335307007970 ATP binding site [chemical binding]; other site 1335307007971 Q-loop/lid; other site 1335307007972 ABC transporter signature motif; other site 1335307007973 Walker B; other site 1335307007974 D-loop; other site 1335307007975 H-loop/switch region; other site 1335307007976 TOBE domain; Region: TOBE_2; pfam08402 1335307007977 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 1335307007978 dimer interface [polypeptide binding]; other site 1335307007979 conserved gate region; other site 1335307007980 putative PBP binding loops; other site 1335307007981 ABC-ATPase subunit interface; other site 1335307007982 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1335307007983 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 1335307007984 dimer interface [polypeptide binding]; other site 1335307007985 conserved gate region; other site 1335307007986 putative PBP binding loops; other site 1335307007987 ABC-ATPase subunit interface; other site 1335307007988 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1335307007989 Putative phosphatase (DUF442); Region: DUF442; cl17385 1335307007990 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 1335307007991 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1335307007992 PAS fold; Region: PAS_4; pfam08448 1335307007993 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 1335307007994 putative active site [active] 1335307007995 heme pocket [chemical binding]; other site 1335307007996 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1335307007997 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 1335307007998 Walker A motif; other site 1335307007999 ATP binding site [chemical binding]; other site 1335307008000 Walker B motif; other site 1335307008001 arginine finger; other site 1335307008002 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 1335307008003 DNA-binding interface [nucleotide binding]; DNA binding site 1335307008004 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 1335307008005 Predicted transcriptional regulator [Transcription]; Region: COG3655 1335307008006 sequence-specific DNA binding site [nucleotide binding]; other site 1335307008007 salt bridge; other site 1335307008008 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 1335307008009 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1335307008010 DNA binding residues [nucleotide binding] 1335307008011 putative dimer interface [polypeptide binding]; other site 1335307008012 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1335307008013 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1335307008014 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1335307008015 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1335307008016 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1335307008017 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1335307008018 HlyD family secretion protein; Region: HlyD_3; pfam13437 1335307008019 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1335307008020 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1335307008021 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 1335307008022 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 1335307008023 Cl- selectivity filter; other site 1335307008024 Cl- binding residues [ion binding]; other site 1335307008025 pore gating glutamate residue; other site 1335307008026 dimer interface [polypeptide binding]; other site 1335307008027 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 1335307008028 Predicted membrane protein [Function unknown]; Region: COG2855 1335307008029 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307008030 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307008031 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 1335307008032 dimerization interface [polypeptide binding]; other site 1335307008033 SdpI/YhfL protein family; Region: SdpI; pfam13630 1335307008034 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1335307008035 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 1335307008036 substrate binding site [chemical binding]; other site 1335307008037 ATP binding site [chemical binding]; other site 1335307008038 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 1335307008039 D-galactonate transporter; Region: 2A0114; TIGR00893 1335307008040 putative substrate translocation pore; other site 1335307008041 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1335307008042 dimerization interface [polypeptide binding]; other site 1335307008043 ligand binding site [chemical binding]; other site 1335307008044 NADP binding site [chemical binding]; other site 1335307008045 catalytic site [active] 1335307008046 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1335307008047 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1335307008048 DNA binding site [nucleotide binding] 1335307008049 domain linker motif; other site 1335307008050 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 1335307008051 putative ligand binding site [chemical binding]; other site 1335307008052 putative dimerization interface [polypeptide binding]; other site 1335307008053 Putative membrane peptidase family (DUF2324); Region: DUF2324; pfam10086 1335307008054 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 1335307008055 PGDYG protein; Region: PGDYG; pfam14083 1335307008056 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 1335307008057 LTXXQ motif family protein; Region: LTXXQ; pfam07813 1335307008058 thioester reductase domain; Region: Thioester-redct; TIGR01746 1335307008059 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 1335307008060 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1335307008061 AsnC family; Region: AsnC_trans_reg; pfam01037 1335307008062 Double zinc ribbon; Region: DZR; pfam12773 1335307008063 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1335307008064 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307008065 AAA domain; Region: AAA_33; pfam13671 1335307008066 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 1335307008067 active site 1335307008068 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 1335307008069 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1335307008070 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 1335307008071 oligomer interface [polypeptide binding]; other site 1335307008072 metal binding site [ion binding]; metal-binding site 1335307008073 metal binding site [ion binding]; metal-binding site 1335307008074 putative Cl binding site [ion binding]; other site 1335307008075 basic sphincter; other site 1335307008076 hydrophobic gate; other site 1335307008077 periplasmic entrance; other site 1335307008078 YciI-like protein; Reviewed; Region: PRK12866 1335307008079 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1335307008080 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 1335307008081 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1335307008082 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 1335307008083 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 1335307008084 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1335307008085 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1335307008086 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1335307008087 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1335307008088 NosL; Region: NosL; pfam05573 1335307008089 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1335307008090 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1335307008091 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307008092 Walker A/P-loop; other site 1335307008093 ATP binding site [chemical binding]; other site 1335307008094 Q-loop/lid; other site 1335307008095 ABC transporter signature motif; other site 1335307008096 Walker B; other site 1335307008097 D-loop; other site 1335307008098 H-loop/switch region; other site 1335307008099 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 1335307008100 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1335307008101 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1335307008102 nitrous-oxide reductase; Validated; Region: PRK02888 1335307008103 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1335307008104 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1335307008105 ApbE family; Region: ApbE; pfam02424 1335307008106 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1335307008107 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307008108 Walker A/P-loop; other site 1335307008109 ATP binding site [chemical binding]; other site 1335307008110 Q-loop/lid; other site 1335307008111 ABC transporter signature motif; other site 1335307008112 Walker B; other site 1335307008113 D-loop; other site 1335307008114 H-loop/switch region; other site 1335307008115 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1335307008116 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1335307008117 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 1335307008118 dimerization interface [polypeptide binding]; other site 1335307008119 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1335307008120 dimer interface [polypeptide binding]; other site 1335307008121 putative CheW interface [polypeptide binding]; other site 1335307008122 dihydroxyacetone kinase; Provisional; Region: PRK14479 1335307008123 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 1335307008124 DAK2 domain; Region: Dak2; pfam02734 1335307008125 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 1335307008126 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 1335307008127 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1335307008128 iron-sulfur cluster [ion binding]; other site 1335307008129 [2Fe-2S] cluster binding site [ion binding]; other site 1335307008130 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1335307008131 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1335307008132 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 1335307008133 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1335307008134 active site 1335307008135 NAD binding site [chemical binding]; other site 1335307008136 metal binding site [ion binding]; metal-binding site 1335307008137 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 1335307008138 MEKHLA domain; Region: MEKHLA; pfam08670 1335307008139 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1335307008140 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1335307008141 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1335307008142 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1335307008143 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1335307008144 PapC N-terminal domain; Region: PapC_N; pfam13954 1335307008145 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1335307008146 PapC C-terminal domain; Region: PapC_C; pfam13953 1335307008147 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1335307008148 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1335307008149 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1335307008150 Haemagglutinin; Region: HIM; pfam05662 1335307008151 YadA-like C-terminal region; Region: YadA; pfam03895 1335307008152 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1335307008153 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 1335307008154 active site 1335307008155 phosphorylation site [posttranslational modification] 1335307008156 intermolecular recognition site; other site 1335307008157 dimerization interface [polypeptide binding]; other site 1335307008158 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 1335307008159 DNA binding residues [nucleotide binding] 1335307008160 dimerization interface [polypeptide binding]; other site 1335307008161 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1335307008162 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 1335307008163 dimer interface [polypeptide binding]; other site 1335307008164 phosphorylation site [posttranslational modification] 1335307008165 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 1335307008166 ATP binding site [chemical binding]; other site 1335307008167 Mg2+ binding site [ion binding]; other site 1335307008168 G-X-G motif; other site 1335307008169 Response regulator receiver domain; Region: Response_reg; pfam00072 1335307008170 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 1335307008171 active site 1335307008172 phosphorylation site [posttranslational modification] 1335307008173 intermolecular recognition site; other site 1335307008174 dimerization interface [polypeptide binding]; other site 1335307008175 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 1335307008176 transcriptional regulator FimZ; Provisional; Region: PRK09935 1335307008177 H-NS histone family; Region: Histone_HNS; pfam00816 1335307008178 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1335307008179 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 1335307008180 nucleophilic elbow; other site 1335307008181 catalytic triad; other site 1335307008182 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 1335307008183 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1335307008184 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1335307008185 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1335307008186 DNA-binding site [nucleotide binding]; DNA binding site 1335307008187 FCD domain; Region: FCD; pfam07729 1335307008188 Integrase core domain; Region: rve; pfam00665 1335307008189 Integrase core domain; Region: rve_3; pfam13683 1335307008190 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1335307008191 Transposase; Region: HTH_Tnp_1; pfam01527 1335307008192 Amino acid synthesis; Region: AA_synth; pfam06684 1335307008193 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1335307008194 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 1335307008195 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1335307008196 nucleophilic elbow; other site 1335307008197 catalytic triad; other site 1335307008198 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1335307008199 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1335307008200 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1335307008201 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1335307008202 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 1335307008203 NAD(P) binding site [chemical binding]; other site 1335307008204 catalytic residues [active] 1335307008205 NIPSNAP; Region: NIPSNAP; pfam07978 1335307008206 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1335307008207 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1335307008208 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 1335307008209 putative PBP binding loops; other site 1335307008210 ABC-ATPase subunit interface; other site 1335307008211 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1335307008212 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 1335307008213 dimer interface [polypeptide binding]; other site 1335307008214 conserved gate region; other site 1335307008215 putative PBP binding loops; other site 1335307008216 ABC-ATPase subunit interface; other site 1335307008217 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1335307008218 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307008219 Walker A/P-loop; other site 1335307008220 ATP binding site [chemical binding]; other site 1335307008221 Q-loop/lid; other site 1335307008222 ABC transporter signature motif; other site 1335307008223 Walker B; other site 1335307008224 D-loop; other site 1335307008225 H-loop/switch region; other site 1335307008226 TOBE domain; Region: TOBE_2; pfam08402 1335307008227 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1335307008228 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1335307008229 DNA-binding site [nucleotide binding]; DNA binding site 1335307008230 FCD domain; Region: FCD; pfam07729 1335307008231 succinic semialdehyde dehydrogenase; Region: PLN02278 1335307008232 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1335307008233 tetramerization interface [polypeptide binding]; other site 1335307008234 NAD(P) binding site [chemical binding]; other site 1335307008235 catalytic residues [active] 1335307008236 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307008237 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307008238 eyelet of channel; other site 1335307008239 trimer interface [polypeptide binding]; other site 1335307008240 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1335307008241 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1335307008242 ligand binding site [chemical binding]; other site 1335307008243 Outer membrane efflux protein; Region: OEP; pfam02321 1335307008244 Outer membrane efflux protein; Region: OEP; pfam02321 1335307008245 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1335307008246 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1335307008247 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1335307008248 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1335307008249 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1335307008250 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1335307008251 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1335307008252 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1335307008253 Family description; Region: VCBS; pfam13517 1335307008254 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 1335307008255 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1335307008256 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 1335307008257 Walker A/P-loop; other site 1335307008258 ATP binding site [chemical binding]; other site 1335307008259 Q-loop/lid; other site 1335307008260 ABC transporter signature motif; other site 1335307008261 Walker B; other site 1335307008262 D-loop; other site 1335307008263 H-loop/switch region; other site 1335307008264 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1335307008265 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1335307008266 HlyD family secretion protein; Region: HlyD_3; pfam13437 1335307008267 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1335307008268 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1335307008269 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 1335307008270 binding surface 1335307008271 TPR motif; other site 1335307008272 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1335307008273 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 1335307008274 TPR repeat; Region: TPR_11; pfam13414 1335307008275 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 1335307008276 binding surface 1335307008277 TPR motif; other site 1335307008278 TPR repeat; Region: TPR_11; pfam13414 1335307008279 TPR repeat; Region: TPR_11; pfam13414 1335307008280 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 1335307008281 TPR motif; other site 1335307008282 binding surface 1335307008283 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 1335307008284 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 1335307008285 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 1335307008286 TPR motif; other site 1335307008287 binding surface 1335307008288 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 1335307008289 ligand-binding site [chemical binding]; other site 1335307008290 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1335307008291 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 1335307008292 active site 1335307008293 phosphorylation site [posttranslational modification] 1335307008294 intermolecular recognition site; other site 1335307008295 dimerization interface [polypeptide binding]; other site 1335307008296 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 1335307008297 DNA binding site [nucleotide binding] 1335307008298 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1335307008299 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 1335307008300 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 1335307008301 IPT/TIG domain; Region: TIG; pfam01833 1335307008302 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cd00413 1335307008303 active site 1335307008304 catalytic residues [active] 1335307008305 Transposase; Region: HTH_Tnp_1; pfam01527 1335307008306 HTH-like domain; Region: HTH_21; pfam13276 1335307008307 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1335307008308 Integrase core domain; Region: rve; pfam00665 1335307008309 Integrase core domain; Region: rve_3; pfam13683 1335307008310 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1335307008311 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1335307008312 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1335307008313 RNA polymerase sigma factor; Provisional; Region: PRK12536 1335307008314 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1335307008315 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 1335307008316 DNA binding residues [nucleotide binding] 1335307008317 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 1335307008318 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 1335307008319 Predicted membrane protein [Function unknown]; Region: COG2259 1335307008320 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 1335307008321 hypothetical protein; Provisional; Region: PRK05409 1335307008322 Predicted integral membrane protein [Function unknown]; Region: COG5572 1335307008323 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1335307008324 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 1335307008325 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1335307008326 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 1335307008327 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07769 1335307008328 acyl-activating enzyme (AAE) consensus motif; other site 1335307008329 active site 1335307008330 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1335307008331 Condensation domain; Region: Condensation; pfam00668 1335307008332 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1335307008333 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1335307008334 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1335307008335 acyl-activating enzyme (AAE) consensus motif; other site 1335307008336 AMP binding site [chemical binding]; other site 1335307008337 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307008338 Condensation domain; Region: Condensation; pfam00668 1335307008339 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1335307008340 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1335307008341 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1335307008342 acyl-activating enzyme (AAE) consensus motif; other site 1335307008343 AMP binding site [chemical binding]; other site 1335307008344 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307008345 Condensation domain; Region: Condensation; pfam00668 1335307008346 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1335307008347 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1335307008348 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1335307008349 acyl-activating enzyme (AAE) consensus motif; other site 1335307008350 AMP binding site [chemical binding]; other site 1335307008351 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307008352 Condensation domain; Region: Condensation; pfam00668 1335307008353 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1335307008354 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1335307008355 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1335307008356 acyl-activating enzyme (AAE) consensus motif; other site 1335307008357 AMP binding site [chemical binding]; other site 1335307008358 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307008359 Condensation domain; Region: Condensation; pfam00668 1335307008360 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1335307008361 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1335307008362 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1335307008363 acyl-activating enzyme (AAE) consensus motif; other site 1335307008364 AMP binding site [chemical binding]; other site 1335307008365 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1335307008366 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307008367 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1335307008368 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1335307008369 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 1335307008370 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 1335307008371 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1335307008372 catalytic residue [active] 1335307008373 argininosuccinate lyase; Provisional; Region: PRK02186 1335307008374 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1335307008375 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1335307008376 active sites [active] 1335307008377 tetramer interface [polypeptide binding]; other site 1335307008378 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 1335307008379 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307008380 catalytic residue [active] 1335307008381 dimer interface [polypeptide binding]; other site 1335307008382 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 1335307008383 putative substrate translocation pore; other site 1335307008384 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1335307008385 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 1335307008386 argininosuccinate lyase; Provisional; Region: PRK00855 1335307008387 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1335307008388 active sites [active] 1335307008389 tetramer interface [polypeptide binding]; other site 1335307008390 argininosuccinate synthase; Provisional; Region: PRK13820 1335307008391 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 1335307008392 ANP binding site [chemical binding]; other site 1335307008393 Substrate Binding Site II [chemical binding]; other site 1335307008394 Substrate Binding Site I [chemical binding]; other site 1335307008395 Formyltransferase, catalytic core domain; Region: FMT_core; cd08369 1335307008396 active site 1335307008397 substrate binding site [chemical binding]; other site 1335307008398 cosubstrate binding site; other site 1335307008399 catalytic site [active] 1335307008400 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1335307008401 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 1335307008402 S-adenosylmethionine binding site [chemical binding]; other site 1335307008403 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 1335307008404 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1335307008405 catalytic residue [active] 1335307008406 Cupin-like domain; Region: Cupin_8; pfam13621 1335307008407 MbtH-like protein; Region: MbtH; cl01279 1335307008408 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 1335307008409 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307008410 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307008411 trimer interface [polypeptide binding]; other site 1335307008412 eyelet of channel; other site 1335307008413 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1335307008414 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307008415 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1335307008416 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1335307008417 EamA-like transporter family; Region: EamA; pfam00892 1335307008418 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 1335307008419 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1335307008420 dimer interface [polypeptide binding]; other site 1335307008421 putative CheW interface [polypeptide binding]; other site 1335307008422 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 1335307008423 AMP-binding domain protein; Validated; Region: PRK07529 1335307008424 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1335307008425 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 1335307008426 acyl-activating enzyme (AAE) consensus motif; other site 1335307008427 putative AMP binding site [chemical binding]; other site 1335307008428 putative active site [active] 1335307008429 putative CoA binding site [chemical binding]; other site 1335307008430 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 1335307008431 putative substrate translocation pore; other site 1335307008432 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 1335307008433 S-adenosylmethionine binding site [chemical binding]; other site 1335307008434 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1335307008435 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 1335307008436 dimer interface [polypeptide binding]; other site 1335307008437 conserved gate region; other site 1335307008438 putative PBP binding loops; other site 1335307008439 ABC-ATPase subunit interface; other site 1335307008440 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1335307008441 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307008442 Walker A/P-loop; other site 1335307008443 ATP binding site [chemical binding]; other site 1335307008444 Q-loop/lid; other site 1335307008445 ABC transporter signature motif; other site 1335307008446 Walker B; other site 1335307008447 D-loop; other site 1335307008448 H-loop/switch region; other site 1335307008449 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 1335307008450 ABC-ATPase subunit interface; other site 1335307008451 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1335307008452 arginine deiminase; Provisional; Region: PRK01388 1335307008453 ornithine carbamoyltransferase; Validated; Region: PRK02102 1335307008454 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1335307008455 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1335307008456 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 1335307008457 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1335307008458 putative substrate binding site [chemical binding]; other site 1335307008459 nucleotide binding site [chemical binding]; other site 1335307008460 nucleotide binding site [chemical binding]; other site 1335307008461 homodimer interface [polypeptide binding]; other site 1335307008462 short chain dehydrogenase; Provisional; Region: PRK09291 1335307008463 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307008464 NAD(P) binding site [chemical binding]; other site 1335307008465 active site 1335307008466 Domain of unknown function (DUF336); Region: DUF336; pfam03928 1335307008467 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307008468 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307008469 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1335307008470 putative effector binding pocket; other site 1335307008471 putative dimerization interface [polypeptide binding]; other site 1335307008472 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1335307008473 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 1335307008474 C-terminal domain interface [polypeptide binding]; other site 1335307008475 GSH binding site (G-site) [chemical binding]; other site 1335307008476 dimer interface [polypeptide binding]; other site 1335307008477 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 1335307008478 dimer interface [polypeptide binding]; other site 1335307008479 N-terminal domain interface [polypeptide binding]; other site 1335307008480 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1335307008481 MarR family; Region: MarR_2; pfam12802 1335307008482 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1335307008483 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1335307008484 dimerization interface [polypeptide binding]; other site 1335307008485 ligand binding site [chemical binding]; other site 1335307008486 MarR family; Region: MarR_2; cl17246 1335307008487 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1335307008488 putative cyanate transporter; Provisional; Region: cynX; PRK09705 1335307008489 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 1335307008490 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1335307008491 active site 1335307008492 SAM binding site [chemical binding]; other site 1335307008493 homodimer interface [polypeptide binding]; other site 1335307008494 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 1335307008495 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 1335307008496 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1335307008497 active site 1335307008498 putative homodimer interface [polypeptide binding]; other site 1335307008499 SAM binding site [chemical binding]; other site 1335307008500 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 1335307008501 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 1335307008502 S-adenosylmethionine binding site [chemical binding]; other site 1335307008503 precorrin-3B synthase; Region: CobG; TIGR02435 1335307008504 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1335307008505 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1335307008506 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 1335307008507 Precorrin-8X methylmutase; Region: CbiC; pfam02570 1335307008508 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 1335307008509 active site 1335307008510 SAM binding site [chemical binding]; other site 1335307008511 homodimer interface [polypeptide binding]; other site 1335307008512 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 1335307008513 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 1335307008514 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 1335307008515 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1335307008516 active site 1335307008517 SAM binding site [chemical binding]; other site 1335307008518 homodimer interface [polypeptide binding]; other site 1335307008519 PF-ChiA is an uncharacterized chitinase found in the hyperthermophilic archaeon Pyrococcus furiosus with a glycosyl hydrolase family 18 (GH18) catalytic domain as well as a cellulose-binding domain. Members of this domain family are found not only in...; Region: GH18_PF-ChiA-like; cd06543 1335307008520 active site 1335307008521 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 1335307008522 aromatic chitin/cellulose binding site residues [chemical binding]; other site 1335307008523 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 1335307008524 aromatic chitin/cellulose binding site residues [chemical binding]; other site 1335307008525 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1335307008526 Serine hydrolase (FSH1); Region: FSH1; pfam03959 1335307008527 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 1335307008528 metal ion-dependent adhesion site (MIDAS); other site 1335307008529 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 1335307008530 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1335307008531 Walker A motif; other site 1335307008532 ATP binding site [chemical binding]; other site 1335307008533 Walker B motif; other site 1335307008534 arginine finger; other site 1335307008535 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 1335307008536 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1335307008537 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1335307008538 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 1335307008539 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1335307008540 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1335307008541 High-affinity nickel-transport protein; Region: NicO; cl00964 1335307008542 cobalamin biosynthesis protein CbiG; Provisional; Region: PRK07027 1335307008543 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1335307008544 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 1335307008545 homodimer interface [polypeptide binding]; other site 1335307008546 Walker A motif; other site 1335307008547 ATP binding site [chemical binding]; other site 1335307008548 hydroxycobalamin binding site [chemical binding]; other site 1335307008549 Walker B motif; other site 1335307008550 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1335307008551 catalytic triad [active] 1335307008552 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1335307008553 catalytic site [active] 1335307008554 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1335307008555 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1335307008556 N-terminal plug; other site 1335307008557 ligand-binding site [chemical binding]; other site 1335307008558 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 1335307008559 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1335307008560 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1335307008561 Condensation domain; Region: Condensation; pfam00668 1335307008562 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1335307008563 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1335307008564 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1335307008565 acyl-activating enzyme (AAE) consensus motif; other site 1335307008566 AMP binding site [chemical binding]; other site 1335307008567 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307008568 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1335307008569 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1335307008570 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1335307008571 acyl-activating enzyme (AAE) consensus motif; other site 1335307008572 AMP binding site [chemical binding]; other site 1335307008573 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307008574 Condensation domain; Region: Condensation; pfam00668 1335307008575 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1335307008576 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1335307008577 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1335307008578 acyl-activating enzyme (AAE) consensus motif; other site 1335307008579 AMP binding site [chemical binding]; other site 1335307008580 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307008581 Condensation domain; Region: Condensation; pfam00668 1335307008582 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1335307008583 Condensation domain; Region: Condensation; pfam00668 1335307008584 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1335307008585 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1335307008586 acyl-activating enzyme (AAE) consensus motif; other site 1335307008587 AMP binding site [chemical binding]; other site 1335307008588 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307008589 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 1335307008590 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1335307008591 Walker A/P-loop; other site 1335307008592 ATP binding site [chemical binding]; other site 1335307008593 Q-loop/lid; other site 1335307008594 ABC transporter signature motif; other site 1335307008595 Walker B; other site 1335307008596 D-loop; other site 1335307008597 H-loop/switch region; other site 1335307008598 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 1335307008599 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 1335307008600 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1335307008601 siderophore binding site; other site 1335307008602 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 1335307008603 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1335307008604 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 1335307008605 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1335307008606 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 1335307008607 dimer interface [polypeptide binding]; other site 1335307008608 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 1335307008609 ABC-ATPase subunit interface; other site 1335307008610 dimer interface [polypeptide binding]; other site 1335307008611 putative PBP binding regions; other site 1335307008612 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1335307008613 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1335307008614 Walker A/P-loop; other site 1335307008615 ATP binding site [chemical binding]; other site 1335307008616 Q-loop/lid; other site 1335307008617 ABC transporter signature motif; other site 1335307008618 Walker B; other site 1335307008619 D-loop; other site 1335307008620 H-loop/switch region; other site 1335307008621 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1335307008622 MbtH-like protein; Region: MbtH; cl01279 1335307008623 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 1335307008624 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1335307008625 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1335307008626 DNA binding residues [nucleotide binding] 1335307008627 short chain dehydrogenase; Provisional; Region: PRK07060 1335307008628 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307008629 NAD(P) binding site [chemical binding]; other site 1335307008630 active site 1335307008631 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1335307008632 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 1335307008633 N- and C-terminal domain interface [polypeptide binding]; other site 1335307008634 putative active site [active] 1335307008635 MgATP binding site [chemical binding]; other site 1335307008636 catalytic site [active] 1335307008637 metal binding site [ion binding]; metal-binding site 1335307008638 putative xylulose binding site [chemical binding]; other site 1335307008639 putative homodimer interface [polypeptide binding]; other site 1335307008640 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1335307008641 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1335307008642 NAD(P) binding site [chemical binding]; other site 1335307008643 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 1335307008644 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1335307008645 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 1335307008646 TM-ABC transporter signature motif; other site 1335307008647 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1335307008648 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1335307008649 Walker A/P-loop; other site 1335307008650 ATP binding site [chemical binding]; other site 1335307008651 Q-loop/lid; other site 1335307008652 ABC transporter signature motif; other site 1335307008653 Walker B; other site 1335307008654 D-loop; other site 1335307008655 H-loop/switch region; other site 1335307008656 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1335307008657 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 1335307008658 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1335307008659 putative ligand binding site [chemical binding]; other site 1335307008660 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1335307008661 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1335307008662 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307008663 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 1335307008664 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 1335307008665 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 1335307008666 Ligand Binding Site [chemical binding]; other site 1335307008667 Molecular Tunnel; other site 1335307008668 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1335307008669 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307008670 Walker A/P-loop; other site 1335307008671 ATP binding site [chemical binding]; other site 1335307008672 Q-loop/lid; other site 1335307008673 ABC transporter signature motif; other site 1335307008674 Walker B; other site 1335307008675 D-loop; other site 1335307008676 H-loop/switch region; other site 1335307008677 Fimbrial protein; Region: Fimbrial; pfam00419 1335307008678 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1335307008679 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1335307008680 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1335307008681 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1335307008682 PapC N-terminal domain; Region: PapC_N; pfam13954 1335307008683 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1335307008684 PapC C-terminal domain; Region: PapC_C; pfam13953 1335307008685 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1335307008686 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 1335307008687 multidrug efflux protein; Reviewed; Region: PRK09577 1335307008688 Protein export membrane protein; Region: SecD_SecF; cl14618 1335307008689 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 1335307008690 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1335307008691 HlyD family secretion protein; Region: HlyD_3; pfam13437 1335307008692 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 1335307008693 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1335307008694 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1335307008695 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1335307008696 Peptidase family M23; Region: Peptidase_M23; pfam01551 1335307008697 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 1335307008698 dimer interface [polypeptide binding]; other site 1335307008699 conserved gate region; other site 1335307008700 putative PBP binding loops; other site 1335307008701 ABC-ATPase subunit interface; other site 1335307008702 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 1335307008703 dimer interface [polypeptide binding]; other site 1335307008704 conserved gate region; other site 1335307008705 putative PBP binding loops; other site 1335307008706 ABC-ATPase subunit interface; other site 1335307008707 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1335307008708 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 1335307008709 substrate binding pocket [chemical binding]; other site 1335307008710 membrane-bound complex binding site; other site 1335307008711 hinge residues; other site 1335307008712 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1335307008713 TadE-like protein; Region: TadE; pfam07811 1335307008714 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 1335307008715 binding surface 1335307008716 TPR motif; other site 1335307008717 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1335307008718 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1335307008719 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1335307008720 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1335307008721 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1335307008722 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 1335307008723 ATP binding site [chemical binding]; other site 1335307008724 Walker A motif; other site 1335307008725 hexamer interface [polypeptide binding]; other site 1335307008726 Walker B motif; other site 1335307008727 AAA domain; Region: AAA_31; pfam13614 1335307008728 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 1335307008729 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 1335307008730 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1335307008731 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 1335307008732 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1335307008733 Flp pilus assembly protein CpaB; Region: pilus_cpaB; TIGR03177 1335307008734 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1335307008735 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 1335307008736 putative PBP binding loops; other site 1335307008737 dimer interface [polypeptide binding]; other site 1335307008738 ABC-ATPase subunit interface; other site 1335307008739 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1335307008740 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1335307008741 Walker A/P-loop; other site 1335307008742 ATP binding site [chemical binding]; other site 1335307008743 Q-loop/lid; other site 1335307008744 ABC transporter signature motif; other site 1335307008745 Walker B; other site 1335307008746 D-loop; other site 1335307008747 H-loop/switch region; other site 1335307008748 NMT1-like family; Region: NMT1_2; pfam13379 1335307008749 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1335307008750 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 1335307008751 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1335307008752 putative substrate translocation pore; other site 1335307008753 SpoVR family protein; Provisional; Region: PRK11767 1335307008754 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1335307008755 hypothetical protein; Provisional; Region: PRK05325 1335307008756 PrkA family serine protein kinase; Provisional; Region: PRK15455 1335307008757 AAA ATPase domain; Region: AAA_16; pfam13191 1335307008758 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1335307008759 Tar ligand binding domain homologue; Region: TarH; pfam02203 1335307008760 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1335307008761 dimerization interface [polypeptide binding]; other site 1335307008762 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1335307008763 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1335307008764 dimer interface [polypeptide binding]; other site 1335307008765 putative CheW interface [polypeptide binding]; other site 1335307008766 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1335307008767 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 1335307008768 substrate binding site [chemical binding]; other site 1335307008769 dimer interface [polypeptide binding]; other site 1335307008770 ATP binding site [chemical binding]; other site 1335307008771 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1335307008772 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1335307008773 DNA binding site [nucleotide binding] 1335307008774 domain linker motif; other site 1335307008775 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1335307008776 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 1335307008777 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1335307008778 TM-ABC transporter signature motif; other site 1335307008779 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1335307008780 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1335307008781 Walker A/P-loop; other site 1335307008782 ATP binding site [chemical binding]; other site 1335307008783 Q-loop/lid; other site 1335307008784 ABC transporter signature motif; other site 1335307008785 Walker B; other site 1335307008786 D-loop; other site 1335307008787 H-loop/switch region; other site 1335307008788 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1335307008789 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1335307008790 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1335307008791 ligand binding site [chemical binding]; other site 1335307008792 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 1335307008793 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307008794 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1335307008795 substrate binding site [chemical binding]; other site 1335307008796 dimerization interface [polypeptide binding]; other site 1335307008797 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1335307008798 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1335307008799 Walker A/P-loop; other site 1335307008800 ATP binding site [chemical binding]; other site 1335307008801 Q-loop/lid; other site 1335307008802 ABC transporter signature motif; other site 1335307008803 Walker B; other site 1335307008804 D-loop; other site 1335307008805 H-loop/switch region; other site 1335307008806 TOBE-like domain; Region: TOBE_3; pfam12857 1335307008807 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1335307008808 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 1335307008809 dimer interface [polypeptide binding]; other site 1335307008810 conserved gate region; other site 1335307008811 putative PBP binding loops; other site 1335307008812 ABC-ATPase subunit interface; other site 1335307008813 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1335307008814 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 1335307008815 dimer interface [polypeptide binding]; other site 1335307008816 conserved gate region; other site 1335307008817 putative PBP binding loops; other site 1335307008818 ABC-ATPase subunit interface; other site 1335307008819 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1335307008820 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 1335307008821 substrate binding pocket [chemical binding]; other site 1335307008822 membrane-bound complex binding site; other site 1335307008823 LexA repressor; Validated; Region: PRK00215 1335307008824 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1335307008825 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 1335307008826 Catalytic site [active] 1335307008827 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 1335307008828 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 1335307008829 Ligand Binding Site [chemical binding]; other site 1335307008830 nodulation ABC transporter NodI; Provisional; Region: PRK13537 1335307008831 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 1335307008832 Walker A/P-loop; other site 1335307008833 ATP binding site [chemical binding]; other site 1335307008834 Q-loop/lid; other site 1335307008835 ABC transporter signature motif; other site 1335307008836 Walker B; other site 1335307008837 D-loop; other site 1335307008838 H-loop/switch region; other site 1335307008839 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1335307008840 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1335307008841 Predicted permease; Region: DUF318; cl17795 1335307008842 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 1335307008843 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1335307008844 active site 1335307008845 catalytic tetrad [active] 1335307008846 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 1335307008847 CoenzymeA binding site [chemical binding]; other site 1335307008848 subunit interaction site [polypeptide binding]; other site 1335307008849 PHB binding site; other site 1335307008850 Predicted transcriptional regulators [Transcription]; Region: COG1733 1335307008851 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1335307008852 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1335307008853 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1335307008854 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1335307008855 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 1335307008856 FMN binding site [chemical binding]; other site 1335307008857 active site 1335307008858 catalytic residues [active] 1335307008859 substrate binding site [chemical binding]; other site 1335307008860 Transposase domain (DUF772); Region: DUF772; pfam05598 1335307008861 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1335307008862 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1335307008863 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 1335307008864 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1335307008865 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1335307008866 Walker A/P-loop; other site 1335307008867 ATP binding site [chemical binding]; other site 1335307008868 Q-loop/lid; other site 1335307008869 ABC transporter signature motif; other site 1335307008870 Walker B; other site 1335307008871 D-loop; other site 1335307008872 H-loop/switch region; other site 1335307008873 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1335307008874 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 1335307008875 dimer interface [polypeptide binding]; other site 1335307008876 conserved gate region; other site 1335307008877 putative PBP binding loops; other site 1335307008878 ABC-ATPase subunit interface; other site 1335307008879 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 1335307008880 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 1335307008881 active site 1335307008882 dimer interface [polypeptide binding]; other site 1335307008883 non-prolyl cis peptide bond; other site 1335307008884 insertion regions; other site 1335307008885 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1335307008886 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 1335307008887 substrate binding site [chemical binding]; other site 1335307008888 oxyanion hole (OAH) forming residues; other site 1335307008889 trimer interface [polypeptide binding]; other site 1335307008890 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1335307008891 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1335307008892 hypothetical protein; Provisional; Region: PRK02487 1335307008893 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_4; cd04511 1335307008894 nudix motif; other site 1335307008895 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1335307008896 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 1335307008897 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1335307008898 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1335307008899 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1335307008900 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 1335307008901 quinone interaction residues [chemical binding]; other site 1335307008902 active site 1335307008903 catalytic residues [active] 1335307008904 FMN binding site [chemical binding]; other site 1335307008905 substrate binding site [chemical binding]; other site 1335307008906 cystine transporter subunit; Provisional; Region: PRK11260 1335307008907 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 1335307008908 substrate binding pocket [chemical binding]; other site 1335307008909 membrane-bound complex binding site; other site 1335307008910 hinge residues; other site 1335307008911 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 1335307008912 dimer interface [polypeptide binding]; other site 1335307008913 conserved gate region; other site 1335307008914 putative PBP binding loops; other site 1335307008915 ABC-ATPase subunit interface; other site 1335307008916 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1335307008917 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1335307008918 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1335307008919 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1335307008920 DNA-binding site [nucleotide binding]; DNA binding site 1335307008921 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1335307008922 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 1335307008923 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1335307008924 active site 1335307008925 dimer interface [polypeptide binding]; other site 1335307008926 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1335307008927 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 1335307008928 amidase catalytic site [active] 1335307008929 Zn binding residues [ion binding]; other site 1335307008930 substrate binding site [chemical binding]; other site 1335307008931 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1335307008932 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1335307008933 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1335307008934 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1335307008935 ribonuclease R; Region: RNase_R; TIGR02063 1335307008936 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1335307008937 RNB domain; Region: RNB; pfam00773 1335307008938 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1335307008939 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 1335307008940 RNA binding site [nucleotide binding]; other site 1335307008941 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1335307008942 dimer interface [polypeptide binding]; other site 1335307008943 putative CheW interface [polypeptide binding]; other site 1335307008944 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1335307008945 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1335307008946 metal binding site [ion binding]; metal-binding site 1335307008947 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1335307008948 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1335307008949 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 1335307008950 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 1335307008951 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1335307008952 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1335307008953 putative sialic acid transporter; Region: 2A0112; TIGR00891 1335307008954 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 1335307008955 putative substrate translocation pore; other site 1335307008956 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1335307008957 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1335307008958 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 1335307008959 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1335307008960 acyl-activating enzyme (AAE) consensus motif; other site 1335307008961 putative AMP binding site [chemical binding]; other site 1335307008962 putative active site [active] 1335307008963 putative CoA binding site [chemical binding]; other site 1335307008964 Protein of unknown function (DUF1571); Region: DUF1571; pfam07608 1335307008965 bacterial Hfq-like; Region: Hfq; cd01716 1335307008966 hexamer interface [polypeptide binding]; other site 1335307008967 Sm1 motif; other site 1335307008968 RNA binding site [nucleotide binding]; other site 1335307008969 Sm2 motif; other site 1335307008970 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 1335307008971 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1335307008972 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 1335307008973 Walker A motif; other site 1335307008974 ATP binding site [chemical binding]; other site 1335307008975 Walker B motif; other site 1335307008976 arginine finger; other site 1335307008977 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1335307008978 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 1335307008979 Predicted membrane protein [Function unknown]; Region: COG4655 1335307008980 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 1335307008981 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 1335307008982 TPR repeat; Region: TPR_11; pfam13414 1335307008983 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 1335307008984 binding surface 1335307008985 TPR motif; other site 1335307008986 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1335307008987 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1335307008988 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1335307008989 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1335307008990 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1335307008991 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 1335307008992 ATP binding site [chemical binding]; other site 1335307008993 Walker A motif; other site 1335307008994 hexamer interface [polypeptide binding]; other site 1335307008995 Walker B motif; other site 1335307008996 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 1335307008997 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 1335307008998 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 1335307008999 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1335307009000 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1335307009001 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 1335307009002 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 1335307009003 TadE-like protein; Region: TadE; pfam07811 1335307009004 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 1335307009005 Flp/Fap pilin component; Region: Flp_Fap; cl01585 1335307009006 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1335307009007 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1335307009008 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1335307009009 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 1335307009010 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1335307009011 Predicted ATPase [General function prediction only]; Region: COG1485 1335307009012 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307009013 Walker B; other site 1335307009014 D-loop; other site 1335307009015 H-loop/switch region; other site 1335307009016 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 1335307009017 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1335307009018 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1335307009019 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1335307009020 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 1335307009021 E3 interaction surface; other site 1335307009022 lipoyl attachment site [posttranslational modification]; other site 1335307009023 e3 binding domain; Region: E3_binding; pfam02817 1335307009024 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1335307009025 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1335307009026 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 1335307009027 TPP-binding site [chemical binding]; other site 1335307009028 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1335307009029 Transposase domain (DUF772); Region: DUF772; pfam05598 1335307009030 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1335307009031 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1335307009032 Transposase domain (DUF772); Region: DUF772; pfam05598 1335307009033 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1335307009034 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1335307009035 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1335307009036 G1 box; other site 1335307009037 putative GEF interaction site [polypeptide binding]; other site 1335307009038 GTP/Mg2+ binding site [chemical binding]; other site 1335307009039 Switch I region; other site 1335307009040 G2 box; other site 1335307009041 G3 box; other site 1335307009042 Switch II region; other site 1335307009043 G4 box; other site 1335307009044 G5 box; other site 1335307009045 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 1335307009046 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 1335307009047 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1335307009048 MarR family; Region: MarR_2; pfam12802 1335307009049 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1335307009050 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 1335307009051 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1335307009052 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 1335307009053 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1335307009054 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 1335307009055 putative substrate translocation pore; other site 1335307009056 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 1335307009057 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 1335307009058 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1335307009059 RNA binding site [nucleotide binding]; other site 1335307009060 active site 1335307009061 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1335307009062 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1335307009063 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1335307009064 translation initiation factor IF-2; Region: IF-2; TIGR00487 1335307009065 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1335307009066 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1335307009067 G1 box; other site 1335307009068 putative GEF interaction site [polypeptide binding]; other site 1335307009069 GTP/Mg2+ binding site [chemical binding]; other site 1335307009070 Switch I region; other site 1335307009071 G2 box; other site 1335307009072 G3 box; other site 1335307009073 Switch II region; other site 1335307009074 G4 box; other site 1335307009075 G5 box; other site 1335307009076 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 1335307009077 Translation-initiation factor 2; Region: IF-2; pfam11987 1335307009078 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 1335307009079 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1335307009080 NusA N-terminal domain; Region: NusA_N; pfam08529 1335307009081 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 1335307009082 RNA binding site [nucleotide binding]; other site 1335307009083 homodimer interface [polypeptide binding]; other site 1335307009084 NusA-like KH domain; Region: KH_5; pfam13184 1335307009085 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 1335307009086 G-X-X-G motif; other site 1335307009087 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1335307009088 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1335307009089 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1335307009090 Sm and related proteins; Region: Sm_like; cl00259 1335307009091 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1335307009092 putative oligomer interface [polypeptide binding]; other site 1335307009093 putative RNA binding site [nucleotide binding]; other site 1335307009094 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1335307009095 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 1335307009096 RNA binding surface [nucleotide binding]; other site 1335307009097 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1335307009098 probable active site [active] 1335307009099 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1335307009100 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307009101 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307009102 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1335307009103 putative dimerization interface [polypeptide binding]; other site 1335307009104 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1335307009105 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1335307009106 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1335307009107 putative active site [active] 1335307009108 outer membrane protein A; Reviewed; Region: PRK10808 1335307009109 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 1335307009110 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 1335307009111 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 1335307009112 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 1335307009113 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 1335307009114 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 1335307009115 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1335307009116 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1335307009117 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1335307009118 DNA binding residues [nucleotide binding] 1335307009119 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 1335307009120 IHF dimer interface [polypeptide binding]; other site 1335307009121 IHF - DNA interface [nucleotide binding]; other site 1335307009122 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1335307009123 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 1335307009124 putative tRNA-binding site [nucleotide binding]; other site 1335307009125 B3/4 domain; Region: B3_4; pfam03483 1335307009126 tRNA synthetase B5 domain; Region: B5; smart00874 1335307009127 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 1335307009128 dimer interface [polypeptide binding]; other site 1335307009129 motif 1; other site 1335307009130 motif 3; other site 1335307009131 motif 2; other site 1335307009132 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 1335307009133 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1335307009134 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1335307009135 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 1335307009136 dimer interface [polypeptide binding]; other site 1335307009137 motif 1; other site 1335307009138 active site 1335307009139 motif 2; other site 1335307009140 motif 3; other site 1335307009141 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1335307009142 23S rRNA binding site [nucleotide binding]; other site 1335307009143 L21 binding site [polypeptide binding]; other site 1335307009144 L13 binding site [polypeptide binding]; other site 1335307009145 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1335307009146 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1335307009147 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1335307009148 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1335307009149 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1335307009150 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 1335307009151 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1335307009152 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 1335307009153 active site 1335307009154 dimer interface [polypeptide binding]; other site 1335307009155 motif 1; other site 1335307009156 motif 2; other site 1335307009157 motif 3; other site 1335307009158 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 1335307009159 anticodon binding site; other site 1335307009160 HD domain; Region: HD_4; pfam13328 1335307009161 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1335307009162 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1335307009163 synthetase active site [active] 1335307009164 NTP binding site [chemical binding]; other site 1335307009165 metal binding site [ion binding]; metal-binding site 1335307009166 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 1335307009167 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1335307009168 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 1335307009169 homotrimer interaction site [polypeptide binding]; other site 1335307009170 putative active site [active] 1335307009171 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1335307009172 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1335307009173 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307009174 transcriptional activator TtdR; Provisional; Region: PRK09801 1335307009175 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 1335307009176 putative effector binding pocket; other site 1335307009177 dimerization interface [polypeptide binding]; other site 1335307009178 SnoaL-like polyketide cyclase; Region: SnoaL; pfam07366 1335307009179 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1335307009180 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1335307009181 short chain dehydrogenase; Provisional; Region: PRK07041 1335307009182 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307009183 NAD(P) binding site [chemical binding]; other site 1335307009184 active site 1335307009185 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1335307009186 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1335307009187 PAS domain; Region: PAS_9; pfam13426 1335307009188 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 1335307009189 putative active site [active] 1335307009190 heme pocket [chemical binding]; other site 1335307009191 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 1335307009192 DNA binding residues [nucleotide binding] 1335307009193 dimerization interface [polypeptide binding]; other site 1335307009194 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 1335307009195 active site 1335307009196 short chain dehydrogenase; Provisional; Region: PRK06949 1335307009197 classical (c) SDRs; Region: SDR_c; cd05233 1335307009198 NAD(P) binding site [chemical binding]; other site 1335307009199 active site 1335307009200 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1335307009201 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1335307009202 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1335307009203 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 1335307009204 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1335307009205 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1335307009206 Tetramer interface [polypeptide binding]; other site 1335307009207 active site 1335307009208 FMN-binding site [chemical binding]; other site 1335307009209 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 1335307009210 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1335307009211 putative acyl-acceptor binding pocket; other site 1335307009212 FOG: CBS domain [General function prediction only]; Region: COG0517 1335307009213 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 1335307009214 Protein of unknown function (DUF962); Region: DUF962; cl01879 1335307009215 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 1335307009216 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1335307009217 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1335307009218 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 1335307009219 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1335307009220 FAD binding domain; Region: FAD_binding_4; pfam01565 1335307009221 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1335307009222 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1335307009223 active site 1335307009224 metal binding site [ion binding]; metal-binding site 1335307009225 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1335307009226 transcriptional regulator; Provisional; Region: PRK10632 1335307009227 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307009228 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 1335307009229 putative effector binding pocket; other site 1335307009230 dimerization interface [polypeptide binding]; other site 1335307009231 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1335307009232 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1335307009233 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1335307009234 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1335307009235 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 1335307009236 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1335307009237 HlyD family secretion protein; Region: HlyD_3; pfam13437 1335307009238 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1335307009239 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1335307009240 dimer interface [polypeptide binding]; other site 1335307009241 putative CheW interface [polypeptide binding]; other site 1335307009242 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 1335307009243 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1335307009244 putative substrate translocation pore; other site 1335307009245 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1335307009246 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1335307009247 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1335307009248 Part of AAA domain; Region: AAA_19; pfam13245 1335307009249 Family description; Region: UvrD_C_2; pfam13538 1335307009250 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1335307009251 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1335307009252 HIGH motif; other site 1335307009253 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1335307009254 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1335307009255 active site 1335307009256 KMSKS motif; other site 1335307009257 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1335307009258 tRNA binding surface [nucleotide binding]; other site 1335307009259 anticodon binding site; other site 1335307009260 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1335307009261 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1335307009262 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1335307009263 active site 1335307009264 tetramer interface; other site 1335307009265 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1335307009266 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 1335307009267 CHASE2 domain; Region: CHASE2; pfam05226 1335307009268 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1335307009269 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 1335307009270 dimer interface [polypeptide binding]; other site 1335307009271 phosphorylation site [posttranslational modification] 1335307009272 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 1335307009273 ATP binding site [chemical binding]; other site 1335307009274 Mg2+ binding site [ion binding]; other site 1335307009275 G-X-G motif; other site 1335307009276 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 1335307009277 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1335307009278 FecR protein; Region: FecR; pfam04773 1335307009279 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1335307009280 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 1335307009281 active site 1335307009282 phosphorylation site [posttranslational modification] 1335307009283 intermolecular recognition site; other site 1335307009284 dimerization interface [polypeptide binding]; other site 1335307009285 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 1335307009286 DNA binding site [nucleotide binding] 1335307009287 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 1335307009288 CPxP motif; other site 1335307009289 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1335307009290 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1335307009291 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1335307009292 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1335307009293 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1335307009294 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1335307009295 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1335307009296 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1335307009297 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 1335307009298 putative active site [active] 1335307009299 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 1335307009300 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1335307009301 putative ligand binding site [chemical binding]; other site 1335307009302 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1335307009303 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 1335307009304 TM-ABC transporter signature motif; other site 1335307009305 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1335307009306 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1335307009307 Walker A/P-loop; other site 1335307009308 ATP binding site [chemical binding]; other site 1335307009309 Q-loop/lid; other site 1335307009310 ABC transporter signature motif; other site 1335307009311 Walker B; other site 1335307009312 D-loop; other site 1335307009313 H-loop/switch region; other site 1335307009314 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1335307009315 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 1335307009316 substrate binding site [chemical binding]; other site 1335307009317 ATP binding site [chemical binding]; other site 1335307009318 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 1335307009319 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 1335307009320 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 1335307009321 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1335307009322 PYR/PP interface [polypeptide binding]; other site 1335307009323 dimer interface [polypeptide binding]; other site 1335307009324 TPP binding site [chemical binding]; other site 1335307009325 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1335307009326 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 1335307009327 TPP-binding site [chemical binding]; other site 1335307009328 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1335307009329 KduI/IolB family; Region: KduI; pfam04962 1335307009330 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1335307009331 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1335307009332 Walker A/P-loop; other site 1335307009333 ATP binding site [chemical binding]; other site 1335307009334 Q-loop/lid; other site 1335307009335 ABC transporter signature motif; other site 1335307009336 Walker B; other site 1335307009337 D-loop; other site 1335307009338 H-loop/switch region; other site 1335307009339 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 1335307009340 TM-ABC transporter signature motif; other site 1335307009341 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 1335307009342 active site 1335307009343 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1335307009344 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 1335307009345 putative active site [active] 1335307009346 metal binding site [ion binding]; metal-binding site 1335307009347 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 1335307009348 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 1335307009349 nudix motif; other site 1335307009350 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1335307009351 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1335307009352 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 1335307009353 protein binding site [polypeptide binding]; other site 1335307009354 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 1335307009355 protein binding site [polypeptide binding]; other site 1335307009356 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 1335307009357 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307009358 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307009359 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 1335307009360 dimerization interface [polypeptide binding]; other site 1335307009361 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1335307009362 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 1335307009363 motif 1; other site 1335307009364 active site 1335307009365 motif 2; other site 1335307009366 motif 3; other site 1335307009367 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1335307009368 DHHA1 domain; Region: DHHA1; pfam02272 1335307009369 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1335307009370 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1335307009371 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1335307009372 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1335307009373 active site 1335307009374 HIGH motif; other site 1335307009375 nucleotide binding site [chemical binding]; other site 1335307009376 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1335307009377 KMSKS motif; other site 1335307009378 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1335307009379 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 1335307009380 nudix motif; other site 1335307009381 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1335307009382 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1335307009383 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 1335307009384 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 1335307009385 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 1335307009386 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 1335307009387 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 1335307009388 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 1335307009389 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 1335307009390 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 1335307009391 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 1335307009392 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1335307009393 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1335307009394 HlyD family secretion protein; Region: HlyD_3; pfam13437 1335307009395 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1335307009396 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 1335307009397 putative substrate translocation pore; other site 1335307009398 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1335307009399 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1335307009400 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 1335307009401 active site 1335307009402 phosphorylation site [posttranslational modification] 1335307009403 intermolecular recognition site; other site 1335307009404 dimerization interface [polypeptide binding]; other site 1335307009405 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 1335307009406 DNA binding residues [nucleotide binding] 1335307009407 dimerization interface [polypeptide binding]; other site 1335307009408 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 1335307009409 dimer interface [polypeptide binding]; other site 1335307009410 phosphorylation site [posttranslational modification] 1335307009411 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 1335307009412 ATP binding site [chemical binding]; other site 1335307009413 Mg2+ binding site [ion binding]; other site 1335307009414 G-X-G motif; other site 1335307009415 Response regulator receiver domain; Region: Response_reg; pfam00072 1335307009416 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 1335307009417 active site 1335307009418 phosphorylation site [posttranslational modification] 1335307009419 intermolecular recognition site; other site 1335307009420 dimerization interface [polypeptide binding]; other site 1335307009421 Spore Coat Protein U domain; Region: SCPU; pfam05229 1335307009422 Spore Coat Protein U domain; Region: SCPU; pfam05229 1335307009423 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1335307009424 PapC N-terminal domain; Region: PapC_N; pfam13954 1335307009425 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1335307009426 PapC C-terminal domain; Region: PapC_C; pfam13953 1335307009427 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1335307009428 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1335307009429 Spore Coat Protein U domain; Region: SCPU; pfam05229 1335307009430 Spore Coat Protein U domain; Region: SCPU; pfam05229 1335307009431 Spore Coat Protein U domain; Region: SCPU; pfam05229 1335307009432 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1335307009433 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307009434 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1335307009435 dimerization interface [polypeptide binding]; other site 1335307009436 substrate binding pocket [chemical binding]; other site 1335307009437 benzoate transport; Region: 2A0115; TIGR00895 1335307009438 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 1335307009439 putative substrate translocation pore; other site 1335307009440 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1335307009441 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 1335307009442 active site 1335307009443 H-NS histone family; Region: Histone_HNS; pfam00816 1335307009444 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1335307009445 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1335307009446 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1335307009447 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1335307009448 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1335307009449 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1335307009450 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1335307009451 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 1335307009452 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 1335307009453 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1335307009454 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1335307009455 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1335307009456 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 1335307009457 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 1335307009458 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 1335307009459 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1335307009460 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 1335307009461 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1335307009462 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1335307009463 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1335307009464 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 1335307009465 PAAR motif; Region: PAAR_motif; pfam05488 1335307009466 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1335307009467 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 1335307009468 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1335307009469 Ricin-type beta-trefoil; Region: RICIN; smart00458 1335307009470 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 1335307009471 putative sugar binding sites [chemical binding]; other site 1335307009472 Q-X-W motif; other site 1335307009473 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 1335307009474 Ricin-type beta-trefoil lectin domain-like; Region: RicinB_lectin_2; pfam14200 1335307009475 Galactose oxidase, central domain; Region: Kelch_3; cl02701 1335307009476 Kelch motif; Region: Kelch_6; pfam13964 1335307009477 C-terminal Early set domain associated with the catalytic domain of galactose oxidase; Region: E_set_GO_C; cd02851 1335307009478 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1335307009479 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 1335307009480 Cu(I) binding site [ion binding]; other site 1335307009481 H-NS histone family; Region: Histone_HNS; pfam00816 1335307009482 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1335307009483 TPR repeat; Region: TPR_11; pfam13414 1335307009484 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 1335307009485 binding surface 1335307009486 TPR motif; other site 1335307009487 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 1335307009488 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1335307009489 ligand binding site [chemical binding]; other site 1335307009490 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1335307009491 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1335307009492 trimer interface [polypeptide binding]; other site 1335307009493 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1335307009494 trimer interface [polypeptide binding]; other site 1335307009495 YadA-like C-terminal region; Region: YadA; pfam03895 1335307009496 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1335307009497 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 1335307009498 active site 1335307009499 phosphorylation site [posttranslational modification] 1335307009500 intermolecular recognition site; other site 1335307009501 dimerization interface [polypeptide binding]; other site 1335307009502 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 1335307009503 DNA binding site [nucleotide binding] 1335307009504 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 1335307009505 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 1335307009506 Protein of unknown function (DUF3955); Region: DUF3955; pfam13127 1335307009507 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1335307009508 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 1335307009509 active site 1335307009510 phosphorylation site [posttranslational modification] 1335307009511 intermolecular recognition site; other site 1335307009512 dimerization interface [polypeptide binding]; other site 1335307009513 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 1335307009514 DNA binding site [nucleotide binding] 1335307009515 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307009516 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307009517 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 1335307009518 dimerization interface [polypeptide binding]; other site 1335307009519 Glycoside hydrolase family 44; Region: Glyco_hydro_44; pfam12891 1335307009520 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 1335307009521 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1335307009522 Interdomain contacts; other site 1335307009523 Cytokine receptor motif; other site 1335307009524 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 1335307009525 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 1335307009526 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1335307009527 active site 1335307009528 homodimer interface [polypeptide binding]; other site 1335307009529 catalytic site [active] 1335307009530 acceptor binding site [chemical binding]; other site 1335307009531 trehalose synthase; Region: treS_nterm; TIGR02456 1335307009532 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 1335307009533 active site 1335307009534 catalytic site [active] 1335307009535 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 1335307009536 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 1335307009537 glycogen branching enzyme; Provisional; Region: PRK05402 1335307009538 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1335307009539 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1335307009540 active site 1335307009541 catalytic site [active] 1335307009542 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1335307009543 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1335307009544 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 1335307009545 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1335307009546 active site 1335307009547 catalytic site [active] 1335307009548 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 1335307009549 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 1335307009550 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 1335307009551 catalytic site [active] 1335307009552 active site 1335307009553 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1335307009554 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1335307009555 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 1335307009556 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 1335307009557 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1335307009558 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 1335307009559 active site 1335307009560 catalytic site [active] 1335307009561 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1335307009562 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 1335307009563 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 1335307009564 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1335307009565 DNA-binding site [nucleotide binding]; DNA binding site 1335307009566 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 1335307009567 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307009568 homodimer interface [polypeptide binding]; other site 1335307009569 catalytic residue [active] 1335307009570 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1335307009571 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1335307009572 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1335307009573 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 1335307009574 Leucine carboxyl methyltransferase; Region: LCM; cl01306 1335307009575 PAAR motif; Region: PAAR_motif; pfam05488 1335307009576 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1335307009577 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 1335307009578 DNA binding site [nucleotide binding] 1335307009579 active site 1335307009580 Int/Topo IB signature motif; other site 1335307009581 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 1335307009582 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 1335307009583 active site 1335307009584 catalytic residues [active] 1335307009585 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1335307009586 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1335307009587 Peptidase family M23; Region: Peptidase_M23; pfam01551 1335307009588 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1335307009589 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 1335307009590 active site 1335307009591 acyl-activating enzyme (AAE) consensus motif; other site 1335307009592 putative CoA binding site [chemical binding]; other site 1335307009593 AMP binding site [chemical binding]; other site 1335307009594 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 1335307009595 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1335307009596 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 1335307009597 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1335307009598 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 1335307009599 catalytic core [active] 1335307009600 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 1335307009601 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 1335307009602 active site 1335307009603 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1335307009604 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1335307009605 polyphosphate kinase; Provisional; Region: PRK05443 1335307009606 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1335307009607 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1335307009608 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1335307009609 putative active site [active] 1335307009610 catalytic site [active] 1335307009611 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1335307009612 putative domain interface [polypeptide binding]; other site 1335307009613 putative active site [active] 1335307009614 catalytic site [active] 1335307009615 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1335307009616 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 1335307009617 dimer interface [polypeptide binding]; other site 1335307009618 phosphorylation site [posttranslational modification] 1335307009619 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 1335307009620 ATP binding site [chemical binding]; other site 1335307009621 Mg2+ binding site [ion binding]; other site 1335307009622 G-X-G motif; other site 1335307009623 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1335307009624 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 1335307009625 active site 1335307009626 phosphorylation site [posttranslational modification] 1335307009627 intermolecular recognition site; other site 1335307009628 dimerization interface [polypeptide binding]; other site 1335307009629 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 1335307009630 DNA binding site [nucleotide binding] 1335307009631 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1335307009632 PhoU domain; Region: PhoU; pfam01895 1335307009633 PhoU domain; Region: PhoU; pfam01895 1335307009634 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 1335307009635 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1335307009636 Walker A/P-loop; other site 1335307009637 ATP binding site [chemical binding]; other site 1335307009638 Q-loop/lid; other site 1335307009639 ABC transporter signature motif; other site 1335307009640 Walker B; other site 1335307009641 D-loop; other site 1335307009642 H-loop/switch region; other site 1335307009643 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 1335307009644 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 1335307009645 dimer interface [polypeptide binding]; other site 1335307009646 conserved gate region; other site 1335307009647 putative PBP binding loops; other site 1335307009648 ABC-ATPase subunit interface; other site 1335307009649 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 1335307009650 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 1335307009651 dimer interface [polypeptide binding]; other site 1335307009652 conserved gate region; other site 1335307009653 putative PBP binding loops; other site 1335307009654 ABC-ATPase subunit interface; other site 1335307009655 PBP superfamily domain; Region: PBP_like_2; cl17296 1335307009656 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1335307009657 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 1335307009658 active site 1335307009659 substrate binding site [chemical binding]; other site 1335307009660 metal binding site [ion binding]; metal-binding site 1335307009661 dihydropteroate synthase; Region: DHPS; TIGR01496 1335307009662 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 1335307009663 substrate binding pocket [chemical binding]; other site 1335307009664 dimer interface [polypeptide binding]; other site 1335307009665 inhibitor binding site; inhibition site 1335307009666 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 1335307009667 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 1335307009668 Walker A motif; other site 1335307009669 ATP binding site [chemical binding]; other site 1335307009670 Walker B motif; other site 1335307009671 arginine finger; other site 1335307009672 Peptidase family M41; Region: Peptidase_M41; pfam01434 1335307009673 FtsJ-like methyltransferase; Region: FtsJ; cl17430 1335307009674 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1335307009675 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 1335307009676 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 1335307009677 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1335307009678 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1335307009679 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1335307009680 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1335307009681 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1335307009682 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1335307009683 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1335307009684 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1335307009685 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1335307009686 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 1335307009687 IMP binding site; other site 1335307009688 dimer interface [polypeptide binding]; other site 1335307009689 interdomain contacts; other site 1335307009690 partial ornithine binding site; other site 1335307009691 leucine export protein LeuE; Provisional; Region: PRK10958 1335307009692 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1335307009693 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1335307009694 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1335307009695 catalytic site [active] 1335307009696 subunit interface [polypeptide binding]; other site 1335307009697 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1335307009698 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1335307009699 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307009700 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 1335307009701 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1335307009702 putative substrate translocation pore; other site 1335307009703 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 1335307009704 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 1335307009705 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1335307009706 catalytic residue [active] 1335307009707 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 1335307009708 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1335307009709 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1335307009710 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 1335307009711 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1335307009712 RNA/DNA hybrid binding site [nucleotide binding]; other site 1335307009713 active site 1335307009714 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1335307009715 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 1335307009716 active site 1335307009717 catalytic site [active] 1335307009718 substrate binding site [chemical binding]; other site 1335307009719 hypothetical protein; Provisional; Region: PRK02237 1335307009720 proline/glycine betaine transporter; Provisional; Region: PRK10642 1335307009721 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 1335307009722 putative substrate translocation pore; other site 1335307009723 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1335307009724 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 1335307009725 C-terminal domain interface [polypeptide binding]; other site 1335307009726 GSH binding site (G-site) [chemical binding]; other site 1335307009727 dimer interface [polypeptide binding]; other site 1335307009728 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1335307009729 N-terminal domain interface [polypeptide binding]; other site 1335307009730 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1335307009731 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1335307009732 putative active site [active] 1335307009733 catalytic site [active] 1335307009734 Acyl transferase domain; Region: Acyl_transf_1; cl08282 1335307009735 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 1335307009736 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293; cl07913 1335307009737 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293; cl07913 1335307009738 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; cl17835 1335307009739 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 1335307009740 malonate decarboxylase subunit delta; Provisional; Region: PRK02103 1335307009741 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 1335307009742 Coenzyme A transferase; Region: CoA_trans; cl17247 1335307009743 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 1335307009744 Malonate transporter MadL subunit; Region: MadL; cl04273 1335307009745 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307009746 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307009747 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1335307009748 dimerization interface [polypeptide binding]; other site 1335307009749 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 1335307009750 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1335307009751 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1335307009752 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_GTP; cd00819 1335307009753 active site 1335307009754 substrate-binding site [chemical binding]; other site 1335307009755 metal-binding site [ion binding] 1335307009756 GTP binding site [chemical binding]; other site 1335307009757 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1335307009758 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 1335307009759 putative dimer interface [polypeptide binding]; other site 1335307009760 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1335307009761 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 1335307009762 putative dimer interface [polypeptide binding]; other site 1335307009763 GSCFA family; Region: GSCFA; pfam08885 1335307009764 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 1335307009765 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1335307009766 DNA-binding site [nucleotide binding]; DNA binding site 1335307009767 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 1335307009768 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307009769 homodimer interface [polypeptide binding]; other site 1335307009770 catalytic residue [active] 1335307009771 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 1335307009772 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1335307009773 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1335307009774 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1335307009775 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 1335307009776 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 1335307009777 short chain dehydrogenase; Provisional; Region: PRK12744 1335307009778 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307009779 NAD(P) binding site [chemical binding]; other site 1335307009780 active site 1335307009781 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307009782 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307009783 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1335307009784 putative effector binding pocket; other site 1335307009785 putative dimerization interface [polypeptide binding]; other site 1335307009786 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 1335307009787 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 1335307009788 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1335307009789 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 1335307009790 glutaminase active site [active] 1335307009791 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 1335307009792 dimer interface [polypeptide binding]; other site 1335307009793 active site 1335307009794 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 1335307009795 dimer interface [polypeptide binding]; other site 1335307009796 active site 1335307009797 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1335307009798 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 1335307009799 putative DNA binding site [nucleotide binding]; other site 1335307009800 putative Zn2+ binding site [ion binding]; other site 1335307009801 AsnC family; Region: AsnC_trans_reg; pfam01037 1335307009802 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 1335307009803 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 1335307009804 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307009805 homodimer interface [polypeptide binding]; other site 1335307009806 catalytic residue [active] 1335307009807 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 1335307009808 Predicted metal-binding integral membrane protein [Function unknown]; Region: COG5486 1335307009809 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 1335307009810 Protein of unknown function (DUF1326); Region: DUF1326; pfam07040 1335307009811 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1335307009812 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1335307009813 metal binding site [ion binding]; metal-binding site 1335307009814 active site 1335307009815 I-site; other site 1335307009816 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1335307009817 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1335307009818 DNA binding site [nucleotide binding] 1335307009819 domain linker motif; other site 1335307009820 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_2; cd06282 1335307009821 putative dimerization interface [polypeptide binding]; other site 1335307009822 putative ligand binding site [chemical binding]; other site 1335307009823 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1335307009824 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1335307009825 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 1335307009826 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1335307009827 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 1335307009828 putative PBP binding loops; other site 1335307009829 ABC-ATPase subunit interface; other site 1335307009830 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1335307009831 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307009832 Walker A/P-loop; other site 1335307009833 ATP binding site [chemical binding]; other site 1335307009834 Q-loop/lid; other site 1335307009835 ABC transporter signature motif; other site 1335307009836 Walker B; other site 1335307009837 D-loop; other site 1335307009838 H-loop/switch region; other site 1335307009839 TOBE domain; Region: TOBE_2; pfam08402 1335307009840 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1335307009841 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1335307009842 active site 1335307009843 metal binding site [ion binding]; metal-binding site 1335307009844 hexamer interface [polypeptide binding]; other site 1335307009845 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1335307009846 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1335307009847 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1335307009848 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 1335307009849 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1335307009850 EamA-like transporter family; Region: EamA; pfam00892 1335307009851 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1335307009852 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 1335307009853 Moco binding site; other site 1335307009854 metal coordination site [ion binding]; other site 1335307009855 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 1335307009856 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 1335307009857 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1335307009858 ThiC-associated domain; Region: ThiC-associated; pfam13667 1335307009859 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1335307009860 EamA-like transporter family; Region: EamA; pfam00892 1335307009861 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1335307009862 EamA-like transporter family; Region: EamA; pfam00892 1335307009863 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 1335307009864 hypothetical protein; Provisional; Region: PRK09256 1335307009865 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1335307009866 AAA domain; Region: AAA_30; pfam13604 1335307009867 Family description; Region: UvrD_C_2; pfam13538 1335307009868 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 1335307009869 Family description; Region: UvrD_C_2; pfam13538 1335307009870 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1335307009871 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 1335307009872 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1335307009873 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1335307009874 Predicted membrane protein [Function unknown]; Region: COG1289 1335307009875 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1335307009876 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1335307009877 putative proline-specific permease; Provisional; Region: proY; PRK10580 1335307009878 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1335307009879 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1335307009880 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1335307009881 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 1335307009882 ABC-ATPase subunit interface; other site 1335307009883 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 1335307009884 ABC-ATPase subunit interface; other site 1335307009885 putative PBP binding loops; other site 1335307009886 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1335307009887 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 1335307009888 Walker A/P-loop; other site 1335307009889 ATP binding site [chemical binding]; other site 1335307009890 Q-loop/lid; other site 1335307009891 ABC transporter signature motif; other site 1335307009892 Walker B; other site 1335307009893 D-loop; other site 1335307009894 H-loop/switch region; other site 1335307009895 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1335307009896 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 1335307009897 putative DNA binding site [nucleotide binding]; other site 1335307009898 putative Zn2+ binding site [ion binding]; other site 1335307009899 AsnC family; Region: AsnC_trans_reg; pfam01037 1335307009900 Cysteine dioxygenase type I; Region: CDO_I; pfam05995 1335307009901 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 1335307009902 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1335307009903 NAD binding site [chemical binding]; other site 1335307009904 putative active site [active] 1335307009905 substrate binding site [chemical binding]; other site 1335307009906 Predicted transcriptional regulator [Transcription]; Region: COG1959 1335307009907 Transcriptional regulator; Region: Rrf2; pfam02082 1335307009908 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 1335307009909 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1335307009910 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1335307009911 Bacterial transcriptional regulator; Region: IclR; pfam01614 1335307009912 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1335307009913 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1335307009914 HlyD family secretion protein; Region: HlyD_3; pfam13437 1335307009915 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1335307009916 Protein export membrane protein; Region: SecD_SecF; cl14618 1335307009917 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 1335307009918 Protein export membrane protein; Region: SecD_SecF; cl14618 1335307009919 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 1335307009920 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1335307009921 NAD(P) binding site [chemical binding]; other site 1335307009922 putative active site [active] 1335307009923 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1335307009924 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 1335307009925 catalytic triad [active] 1335307009926 PAS domain; Region: PAS_9; pfam13426 1335307009927 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 1335307009928 putative active site [active] 1335307009929 heme pocket [chemical binding]; other site 1335307009930 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1335307009931 metal binding site [ion binding]; metal-binding site 1335307009932 active site 1335307009933 I-site; other site 1335307009934 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 1335307009935 HDOD domain; Region: HDOD; pfam08668 1335307009936 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1335307009937 Cytochrome c; Region: Cytochrom_C; cl11414 1335307009938 ba3-like heme-copper oxidase subunit I. The ba3 family of heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and some archaea which catalyze the reduction of O2 and simultaneously pump protons across the...; Region: ba3-like_Oxidase_I; cd01660 1335307009939 Putative D-pathway homolog; other site 1335307009940 Low-spin heme binding site [chemical binding]; other site 1335307009941 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1335307009942 Subunit I/II interface [polypeptide binding]; other site 1335307009943 Putative Q-pathway; other site 1335307009944 Putative alternate electron transfer pathway; other site 1335307009945 Putative water exit pathway; other site 1335307009946 Binuclear center (active site) [active] 1335307009947 Putative K-pathway homolog; other site 1335307009948 Putative proton exit pathway; other site 1335307009949 Subunit I/IIa interface [polypeptide binding]; other site 1335307009950 Electron transfer pathway; other site 1335307009951 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 1335307009952 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1335307009953 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1335307009954 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1335307009955 Cytochrome c; Region: Cytochrom_C; pfam00034 1335307009956 Cytochrome c; Region: Cytochrom_C; cl11414 1335307009957 Cytochrome c; Region: Cytochrom_C; cl11414 1335307009958 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1335307009959 catalytic motif [active] 1335307009960 Catalytic residue [active] 1335307009961 Aspartyl protease; Region: Asp_protease_2; pfam13650 1335307009962 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 1335307009963 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1335307009964 Histidine kinase; Region: HisKA_3; pfam07730 1335307009965 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 1335307009966 ATP binding site [chemical binding]; other site 1335307009967 Mg2+ binding site [ion binding]; other site 1335307009968 G-X-G motif; other site 1335307009969 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1335307009970 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 1335307009971 substrate binding pocket [chemical binding]; other site 1335307009972 membrane-bound complex binding site; other site 1335307009973 hinge residues; other site 1335307009974 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1335307009975 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1335307009976 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1335307009977 ligand binding site [chemical binding]; other site 1335307009978 NAD binding site [chemical binding]; other site 1335307009979 tetramer interface [polypeptide binding]; other site 1335307009980 catalytic site [active] 1335307009981 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1335307009982 L-serine binding site [chemical binding]; other site 1335307009983 ACT domain interface; other site 1335307009984 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1335307009985 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1335307009986 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307009987 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1335307009988 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1335307009989 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1335307009990 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; cl00279 1335307009991 active site 1335307009992 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 1335307009993 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1335307009994 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 1335307009995 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 1335307009996 DNA binding residues [nucleotide binding] 1335307009997 dimerization interface [polypeptide binding]; other site 1335307009998 Predicted membrane protein [Function unknown]; Region: COG3235 1335307009999 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 1335307010000 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 1335307010001 putative active site [active] 1335307010002 Zn binding site [ion binding]; other site 1335307010003 hypothetical protein; Validated; Region: PRK02101 1335307010004 PIN domain; Region: PIN_3; pfam13470 1335307010005 PIN domain; Region: PIN_3; cl17397 1335307010006 methionine aminotransferase; Validated; Region: PRK09082 1335307010007 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 1335307010008 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307010009 homodimer interface [polypeptide binding]; other site 1335307010010 catalytic residue [active] 1335307010011 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1335307010012 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 1335307010013 C-terminal domain interface [polypeptide binding]; other site 1335307010014 GSH binding site (G-site) [chemical binding]; other site 1335307010015 dimer interface [polypeptide binding]; other site 1335307010016 C-terminal, alpha helical domain of an unknown subfamily 9 of Glutathione S-transferases; Region: GST_C_9; cd10424 1335307010017 putative N-terminal domain interface [polypeptide binding]; other site 1335307010018 putative dimer interface [polypeptide binding]; other site 1335307010019 putative substrate binding pocket (H-site) [chemical binding]; other site 1335307010020 enoyl-CoA hydratase; Provisional; Region: PRK07511 1335307010021 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 1335307010022 substrate binding site [chemical binding]; other site 1335307010023 oxyanion hole (OAH) forming residues; other site 1335307010024 trimer interface [polypeptide binding]; other site 1335307010025 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 1335307010026 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 1335307010027 catalytic core [active] 1335307010028 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 1335307010029 putative active site [active] 1335307010030 putative substrate binding site [chemical binding]; other site 1335307010031 ATP binding site [chemical binding]; other site 1335307010032 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1335307010033 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 1335307010034 FAD binding site [chemical binding]; other site 1335307010035 substrate binding site [chemical binding]; other site 1335307010036 catalytic base [active] 1335307010037 Right handed beta helix region; Region: Beta_helix; pfam13229 1335307010038 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 1335307010039 putative active site [active] 1335307010040 putative catalytic site [active] 1335307010041 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 1335307010042 putative active site [active] 1335307010043 putative catalytic site [active] 1335307010044 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 1335307010045 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1335307010046 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1335307010047 active site 1335307010048 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 1335307010049 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 1335307010050 FAD binding site [chemical binding]; other site 1335307010051 substrate binding site [chemical binding]; other site 1335307010052 catalytic base [active] 1335307010053 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 1335307010054 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 1335307010055 dimer interface [polypeptide binding]; other site 1335307010056 ADP-ribose binding site [chemical binding]; other site 1335307010057 active site 1335307010058 nudix motif; other site 1335307010059 metal binding site [ion binding]; metal-binding site 1335307010060 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 1335307010061 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1335307010062 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1335307010063 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1335307010064 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1335307010065 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1335307010066 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1335307010067 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1335307010068 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1335307010069 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1335307010070 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1335307010071 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 1335307010072 4Fe-4S binding domain; Region: Fer4; cl02805 1335307010073 4Fe-4S binding domain; Region: Fer4; pfam00037 1335307010074 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1335307010075 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1335307010076 NADH dehydrogenase subunit G; Validated; Region: PRK09129 1335307010077 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 1335307010078 catalytic loop [active] 1335307010079 iron binding site [ion binding]; other site 1335307010080 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1335307010081 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 1335307010082 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1335307010083 SLBB domain; Region: SLBB; pfam10531 1335307010084 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1335307010085 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1335307010086 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 1335307010087 putative dimer interface [polypeptide binding]; other site 1335307010088 [2Fe-2S] cluster binding site [ion binding]; other site 1335307010089 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1335307010090 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1335307010091 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1335307010092 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1335307010093 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1335307010094 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1335307010095 Preprotein translocase SecG subunit; Region: SecG; pfam03840 1335307010096 triosephosphate isomerase; Provisional; Region: PRK14567 1335307010097 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 1335307010098 substrate binding site [chemical binding]; other site 1335307010099 dimer interface [polypeptide binding]; other site 1335307010100 catalytic triad [active] 1335307010101 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1335307010102 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1335307010103 NAD(P) binding site [chemical binding]; other site 1335307010104 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1335307010105 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1335307010106 RNase E interface [polypeptide binding]; other site 1335307010107 trimer interface [polypeptide binding]; other site 1335307010108 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1335307010109 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1335307010110 RNase E interface [polypeptide binding]; other site 1335307010111 trimer interface [polypeptide binding]; other site 1335307010112 active site 1335307010113 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 1335307010114 putative nucleic acid binding region [nucleotide binding]; other site 1335307010115 G-X-X-G motif; other site 1335307010116 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 1335307010117 RNA binding site [nucleotide binding]; other site 1335307010118 domain interface; other site 1335307010119 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 1335307010120 16S/18S rRNA binding site [nucleotide binding]; other site 1335307010121 S13e-L30e interaction site [polypeptide binding]; other site 1335307010122 25S rRNA binding site [nucleotide binding]; other site 1335307010123 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1335307010124 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 1335307010125 putative ligand binding site [chemical binding]; other site 1335307010126 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_cladeA; cd00883 1335307010127 active site clefts [active] 1335307010128 zinc binding site [ion binding]; other site 1335307010129 dimer interface [polypeptide binding]; other site 1335307010130 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1335307010131 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1335307010132 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1335307010133 2-isopropylmalate synthase; Validated; Region: PRK00915 1335307010134 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1335307010135 active site 1335307010136 catalytic residues [active] 1335307010137 metal binding site [ion binding]; metal-binding site 1335307010138 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1335307010139 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1335307010140 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1335307010141 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 1335307010142 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1335307010143 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1335307010144 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1335307010145 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1335307010146 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1335307010147 putative valine binding site [chemical binding]; other site 1335307010148 dimer interface [polypeptide binding]; other site 1335307010149 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1335307010150 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 1335307010151 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1335307010152 PYR/PP interface [polypeptide binding]; other site 1335307010153 dimer interface [polypeptide binding]; other site 1335307010154 TPP binding site [chemical binding]; other site 1335307010155 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1335307010156 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 1335307010157 TPP-binding site [chemical binding]; other site 1335307010158 dimer interface [polypeptide binding]; other site 1335307010159 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1335307010160 RNA polymerase factor sigma-70; Validated; Region: PRK09047 1335307010161 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 1335307010162 DNA binding residues [nucleotide binding] 1335307010163 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 1335307010164 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 1335307010165 RDD family; Region: RDD; pfam06271 1335307010166 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1335307010167 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1335307010168 putative active site [active] 1335307010169 putative metal binding site [ion binding]; other site 1335307010170 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1335307010171 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 1335307010172 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1335307010173 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1335307010174 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1335307010175 Bacterial transcriptional repressor; Region: TetR; pfam13972 1335307010176 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1335307010177 glucose-1-dehydrogenase; Provisional; Region: PRK06947 1335307010178 classical (c) SDRs; Region: SDR_c; cd05233 1335307010179 NAD(P) binding site [chemical binding]; other site 1335307010180 active site 1335307010181 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1335307010182 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1335307010183 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1335307010184 metabolite-proton symporter; Region: 2A0106; TIGR00883 1335307010185 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 1335307010186 putative substrate translocation pore; other site 1335307010187 amidase; Provisional; Region: PRK07042 1335307010188 Amidase; Region: Amidase; cl11426 1335307010189 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 1335307010190 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 1335307010191 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1335307010192 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 1335307010193 apolar tunnel; other site 1335307010194 heme binding site [chemical binding]; other site 1335307010195 dimerization interface [polypeptide binding]; other site 1335307010196 FtsX-like permease family; Region: FtsX; pfam02687 1335307010197 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 1335307010198 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1335307010199 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 1335307010200 Domain of unknown function (DUF333); Region: DUF333; pfam03891 1335307010201 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 1335307010202 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 1335307010203 active site 1335307010204 phosphorylation site [posttranslational modification] 1335307010205 intermolecular recognition site; other site 1335307010206 dimerization interface [polypeptide binding]; other site 1335307010207 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 1335307010208 DNA binding site [nucleotide binding] 1335307010209 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 1335307010210 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1335307010211 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 1335307010212 Ligand Binding Site [chemical binding]; other site 1335307010213 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1335307010214 GAF domain; Region: GAF_3; pfam13492 1335307010215 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 1335307010216 dimer interface [polypeptide binding]; other site 1335307010217 phosphorylation site [posttranslational modification] 1335307010218 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 1335307010219 ATP binding site [chemical binding]; other site 1335307010220 Mg2+ binding site [ion binding]; other site 1335307010221 G-X-G motif; other site 1335307010222 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 1335307010223 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1335307010224 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1335307010225 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1335307010226 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1335307010227 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1335307010228 NADP binding site [chemical binding]; other site 1335307010229 dimer interface [polypeptide binding]; other site 1335307010230 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 1335307010231 active site 1335307010232 dimer interfaces [polypeptide binding]; other site 1335307010233 catalytic residues [active] 1335307010234 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1335307010235 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 1335307010236 putative NAD(P) binding site [chemical binding]; other site 1335307010237 putative active site [active] 1335307010238 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1335307010239 active site 1335307010240 hypothetical protein; Validated; Region: PRK00110 1335307010241 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1335307010242 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1335307010243 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1335307010244 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1335307010245 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1335307010246 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1335307010247 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1335307010248 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1335307010249 active site 1335307010250 (T/H)XGH motif; other site 1335307010251 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 1335307010252 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1335307010253 Maf-like protein; Region: Maf; pfam02545 1335307010254 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 1335307010255 active site 1335307010256 dimer interface [polypeptide binding]; other site 1335307010257 ribonuclease G; Provisional; Region: PRK11712 1335307010258 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 1335307010259 homodimer interface [polypeptide binding]; other site 1335307010260 oligonucleotide binding site [chemical binding]; other site 1335307010261 integrase; Provisional; Region: PRK09692 1335307010262 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 1335307010263 active site 1335307010264 DNA binding site [nucleotide binding] 1335307010265 Int/Topo IB signature motif; other site 1335307010266 Helix-turn-helix domain; Region: HTH_17; pfam12728 1335307010267 Helix-turn-helix domain; Region: HTH_39; pfam14090 1335307010268 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 1335307010269 active site 1335307010270 Phage Terminase; Region: Terminase_1; pfam03354 1335307010271 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 1335307010272 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 1335307010273 Phage capsid family; Region: Phage_capsid; pfam05065 1335307010274 Phage-related protein [Function unknown]; Region: COG4695 1335307010275 Phage portal protein; Region: Phage_portal; pfam04860 1335307010276 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 1335307010277 oligomerization interface [polypeptide binding]; other site 1335307010278 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1335307010279 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 1335307010280 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1335307010281 Pectinacetylesterase; Region: PAE; pfam03283 1335307010282 phospholipase C accessory protein PlcR; Region: plc_access_R; TIGR03398 1335307010283 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 1335307010284 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 1335307010285 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1335307010286 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 1335307010287 DNA binding residues [nucleotide binding] 1335307010288 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1335307010289 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1335307010290 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1335307010291 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 1335307010292 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1335307010293 putative metal binding site; other site 1335307010294 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1335307010295 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 1335307010296 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1335307010297 putative active site [active] 1335307010298 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1335307010299 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 1335307010300 putative ADP-binding pocket [chemical binding]; other site 1335307010301 O-Antigen ligase; Region: Wzy_C; cl04850 1335307010302 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1335307010303 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1335307010304 putative active site [active] 1335307010305 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 1335307010306 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 1335307010307 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 1335307010308 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1335307010309 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1335307010310 Walker A/P-loop; other site 1335307010311 ATP binding site [chemical binding]; other site 1335307010312 Q-loop/lid; other site 1335307010313 ABC transporter signature motif; other site 1335307010314 Walker B; other site 1335307010315 D-loop; other site 1335307010316 H-loop/switch region; other site 1335307010317 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1335307010318 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1335307010319 putative active site [active] 1335307010320 putative PHP Thumb interface [polypeptide binding]; other site 1335307010321 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 1335307010322 generic binding surface II; other site 1335307010323 generic binding surface I; other site 1335307010324 rhodanese superfamily protein; Provisional; Region: PRK05320 1335307010325 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1335307010326 active site residue [active] 1335307010327 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 1335307010328 active site 1335307010329 HIGH motif; other site 1335307010330 nucleotide binding site [chemical binding]; other site 1335307010331 KMSKS motif; other site 1335307010332 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 1335307010333 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1335307010334 ATP binding site [chemical binding]; other site 1335307010335 Mg++ binding site [ion binding]; other site 1335307010336 motif III; other site 1335307010337 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 1335307010338 nucleotide binding region [chemical binding]; other site 1335307010339 ATP-binding site [chemical binding]; other site 1335307010340 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1335307010341 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1335307010342 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307010343 ATP-grasp domain; Region: ATP-grasp; pfam02222 1335307010344 META domain; Region: META; pfam03724 1335307010345 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1335307010346 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1335307010347 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1335307010348 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 1335307010349 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 1335307010350 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 1335307010351 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 1335307010352 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 1335307010353 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1335307010354 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1335307010355 ferredoxin; Provisional; Region: PRK06991 1335307010356 Putative Fe-S cluster; Region: FeS; pfam04060 1335307010357 4Fe-4S binding domain; Region: Fer4; pfam00037 1335307010358 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1335307010359 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1335307010360 minor groove reading motif; other site 1335307010361 helix-hairpin-helix signature motif; other site 1335307010362 substrate binding pocket [chemical binding]; other site 1335307010363 active site 1335307010364 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 1335307010365 EamA-like transporter family; Region: EamA; pfam00892 1335307010366 EamA-like transporter family; Region: EamA; pfam00892 1335307010367 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 1335307010368 Cytochrome c; Region: Cytochrom_C; cl11414 1335307010369 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1335307010370 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1335307010371 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 1335307010372 Walker A motif; other site 1335307010373 ATP binding site [chemical binding]; other site 1335307010374 Walker B motif; other site 1335307010375 arginine finger; other site 1335307010376 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 1335307010377 Benzoate membrane transport protein; Region: BenE; pfam03594 1335307010378 benzoate transporter; Region: benE; TIGR00843 1335307010379 transaldolase-like protein; Provisional; Region: PTZ00411 1335307010380 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1335307010381 active site 1335307010382 dimer interface [polypeptide binding]; other site 1335307010383 catalytic residue [active] 1335307010384 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1335307010385 dimer interface [polypeptide binding]; other site 1335307010386 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1335307010387 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1335307010388 Na binding site [ion binding]; other site 1335307010389 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 1335307010390 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 1335307010391 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 1335307010392 putative active site [active] 1335307010393 Chorismate lyase; Region: Chor_lyase; cl01230 1335307010394 heat shock protein 90; Provisional; Region: PRK05218 1335307010395 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 1335307010396 ATP binding site [chemical binding]; other site 1335307010397 Mg2+ binding site [ion binding]; other site 1335307010398 G-X-G motif; other site 1335307010399 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 1335307010400 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1335307010401 DNA-binding site [nucleotide binding]; DNA binding site 1335307010402 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 1335307010403 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307010404 homodimer interface [polypeptide binding]; other site 1335307010405 catalytic residue [active] 1335307010406 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 1335307010407 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1335307010408 EamA-like transporter family; Region: EamA; pfam00892 1335307010409 EamA-like transporter family; Region: EamA; pfam00892 1335307010410 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1335307010411 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 1335307010412 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307010413 homodimer interface [polypeptide binding]; other site 1335307010414 catalytic residue [active] 1335307010415 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 1335307010416 homotrimer interaction site [polypeptide binding]; other site 1335307010417 putative active site [active] 1335307010418 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1335307010419 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1335307010420 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1335307010421 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1335307010422 metal binding site [ion binding]; metal-binding site 1335307010423 active site 1335307010424 I-site; other site 1335307010425 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 1335307010426 Chromate transporter; Region: Chromate_transp; pfam02417 1335307010427 Chromate transporter; Region: Chromate_transp; pfam02417 1335307010428 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1335307010429 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 1335307010430 active site 1335307010431 Zn binding site [ion binding]; other site 1335307010432 allantoate amidohydrolase; Reviewed; Region: PRK12893 1335307010433 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1335307010434 active site 1335307010435 metal binding site [ion binding]; metal-binding site 1335307010436 dimer interface [polypeptide binding]; other site 1335307010437 metabolite-proton symporter; Region: 2A0106; TIGR00883 1335307010438 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307010439 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307010440 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 1335307010441 dimerization interface [polypeptide binding]; other site 1335307010442 Predicted membrane protein [Function unknown]; Region: COG4125 1335307010443 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1335307010444 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1335307010445 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307010446 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307010447 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 1335307010448 dimerization interface [polypeptide binding]; other site 1335307010449 Predicted integral membrane protein [Function unknown]; Region: COG5615 1335307010450 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1335307010451 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 1335307010452 CAP-like domain; other site 1335307010453 active site 1335307010454 primary dimer interface [polypeptide binding]; other site 1335307010455 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1335307010456 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 1335307010457 ATP binding site [chemical binding]; other site 1335307010458 Mg2+ binding site [ion binding]; other site 1335307010459 G-X-G motif; other site 1335307010460 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 1335307010461 anchoring element; other site 1335307010462 dimer interface [polypeptide binding]; other site 1335307010463 ATP binding site [chemical binding]; other site 1335307010464 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 1335307010465 active site 1335307010466 metal binding site [ion binding]; metal-binding site 1335307010467 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1335307010468 ABC transporter ATPase component; Reviewed; Region: PRK11147 1335307010469 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307010470 Walker A/P-loop; other site 1335307010471 ATP binding site [chemical binding]; other site 1335307010472 Q-loop/lid; other site 1335307010473 ABC transporter signature motif; other site 1335307010474 Walker B; other site 1335307010475 D-loop; other site 1335307010476 H-loop/switch region; other site 1335307010477 ABC transporter; Region: ABC_tran_2; pfam12848 1335307010478 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1335307010479 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 1335307010480 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 1335307010481 Rubredoxin; Region: Rubredoxin; pfam00301 1335307010482 iron binding site [ion binding]; other site 1335307010483 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 1335307010484 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1335307010485 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1335307010486 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 1335307010487 rRNA binding site [nucleotide binding]; other site 1335307010488 predicted 30S ribosome binding site; other site 1335307010489 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 1335307010490 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1335307010491 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1335307010492 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1335307010493 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1335307010494 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1335307010495 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1335307010496 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1335307010497 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1335307010498 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; pfam08816 1335307010499 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1335307010500 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1335307010501 ecotin; Provisional; Region: PRK03719 1335307010502 secondary substrate binding site; other site 1335307010503 primary substrate binding site; other site 1335307010504 inhibition loop; other site 1335307010505 dimerization interface [polypeptide binding]; other site 1335307010506 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1335307010507 substrate binding site [chemical binding]; other site 1335307010508 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 1335307010509 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1335307010510 putative substrate translocation pore; other site 1335307010511 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 1335307010512 Predicted ATPase [General function prediction only]; Region: COG3911 1335307010513 AAA domain; Region: AAA_28; pfam13521 1335307010514 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 1335307010515 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 1335307010516 active site 1335307010517 homotetramer interface [polypeptide binding]; other site 1335307010518 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1335307010519 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1335307010520 Walker A/P-loop; other site 1335307010521 ATP binding site [chemical binding]; other site 1335307010522 Q-loop/lid; other site 1335307010523 ABC transporter signature motif; other site 1335307010524 Walker B; other site 1335307010525 D-loop; other site 1335307010526 H-loop/switch region; other site 1335307010527 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 1335307010528 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 1335307010529 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 1335307010530 dimer interface [polypeptide binding]; other site 1335307010531 conserved gate region; other site 1335307010532 putative PBP binding loops; other site 1335307010533 ABC-ATPase subunit interface; other site 1335307010534 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 1335307010535 dimer interface [polypeptide binding]; other site 1335307010536 conserved gate region; other site 1335307010537 putative PBP binding loops; other site 1335307010538 ABC-ATPase subunit interface; other site 1335307010539 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1335307010540 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 1335307010541 dimer interface [polypeptide binding]; other site 1335307010542 phosphorylation site [posttranslational modification] 1335307010543 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 1335307010544 ATP binding site [chemical binding]; other site 1335307010545 Mg2+ binding site [ion binding]; other site 1335307010546 G-X-G motif; other site 1335307010547 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1335307010548 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 1335307010549 active site 1335307010550 phosphorylation site [posttranslational modification] 1335307010551 intermolecular recognition site; other site 1335307010552 dimerization interface [polypeptide binding]; other site 1335307010553 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 1335307010554 DNA binding site [nucleotide binding] 1335307010555 Pirin-related protein [General function prediction only]; Region: COG1741 1335307010556 Pirin; Region: Pirin; pfam02678 1335307010557 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1335307010558 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 1335307010559 substrate binding pocket [chemical binding]; other site 1335307010560 membrane-bound complex binding site; other site 1335307010561 hinge residues; other site 1335307010562 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1335307010563 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 1335307010564 dimer interface [polypeptide binding]; other site 1335307010565 conserved gate region; other site 1335307010566 putative PBP binding loops; other site 1335307010567 ABC-ATPase subunit interface; other site 1335307010568 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1335307010569 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 1335307010570 dimer interface [polypeptide binding]; other site 1335307010571 conserved gate region; other site 1335307010572 putative PBP binding loops; other site 1335307010573 ABC-ATPase subunit interface; other site 1335307010574 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1335307010575 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1335307010576 Walker A/P-loop; other site 1335307010577 ATP binding site [chemical binding]; other site 1335307010578 Q-loop/lid; other site 1335307010579 ABC transporter signature motif; other site 1335307010580 Walker B; other site 1335307010581 D-loop; other site 1335307010582 H-loop/switch region; other site 1335307010583 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307010584 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307010585 trimer interface [polypeptide binding]; other site 1335307010586 eyelet of channel; other site 1335307010587 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1335307010588 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1335307010589 NAD synthetase; Provisional; Region: PRK13981 1335307010590 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1335307010591 multimer interface [polypeptide binding]; other site 1335307010592 active site 1335307010593 catalytic triad [active] 1335307010594 protein interface 1 [polypeptide binding]; other site 1335307010595 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 1335307010596 homodimer interface [polypeptide binding]; other site 1335307010597 NAD binding pocket [chemical binding]; other site 1335307010598 ATP binding pocket [chemical binding]; other site 1335307010599 Mg binding site [ion binding]; other site 1335307010600 active-site loop [active] 1335307010601 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1335307010602 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1335307010603 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 1335307010604 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1335307010605 GIY-YIG motif/motif A; other site 1335307010606 putative active site [active] 1335307010607 putative metal binding site [ion binding]; other site 1335307010608 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 1335307010609 dimer interface [polypeptide binding]; other site 1335307010610 substrate binding site [chemical binding]; other site 1335307010611 metal binding sites [ion binding]; metal-binding site 1335307010612 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1335307010613 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 1335307010614 NAD(P) binding site [chemical binding]; other site 1335307010615 catalytic residues [active] 1335307010616 catalytic residues [active] 1335307010617 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307010618 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1335307010619 NAD(P) binding site [chemical binding]; other site 1335307010620 active site 1335307010621 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1335307010622 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 1335307010623 putative substrate translocation pore; other site 1335307010624 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 1335307010625 HemY protein N-terminus; Region: HemY_N; pfam07219 1335307010626 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 1335307010627 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 1335307010628 active site 1335307010629 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1335307010630 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1335307010631 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 1335307010632 domain interfaces; other site 1335307010633 active site 1335307010634 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1335307010635 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1335307010636 Transposase domain (DUF772); Region: DUF772; pfam05598 1335307010637 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1335307010638 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1335307010639 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1335307010640 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 1335307010641 S-adenosylmethionine binding site [chemical binding]; other site 1335307010642 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 1335307010643 sequence-specific DNA binding site [nucleotide binding]; other site 1335307010644 salt bridge; other site 1335307010645 Spore Coat Protein U domain; Region: SCPU; pfam05229 1335307010646 Spore Coat Protein U domain; Region: SCPU; pfam05229 1335307010647 Uncharacterized secreted protein [Function unknown]; Region: COG5430 1335307010648 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1335307010649 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1335307010650 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1335307010651 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1335307010652 PapC C-terminal domain; Region: PapC_C; pfam13953 1335307010653 argininosuccinate lyase; Provisional; Region: PRK00855 1335307010654 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1335307010655 active sites [active] 1335307010656 tetramer interface [polypeptide binding]; other site 1335307010657 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1335307010658 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 1335307010659 motif II; other site 1335307010660 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 1335307010661 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 1335307010662 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1335307010663 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1335307010664 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 1335307010665 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1335307010666 catalytic residue [active] 1335307010667 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1335307010668 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1335307010669 trimer interface [polypeptide binding]; other site 1335307010670 active site 1335307010671 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1335307010672 Copper/zinc superoxide dismutase (SODC); Region: Sod_Cu; pfam00080 1335307010673 E-class dimer interface [polypeptide binding]; other site 1335307010674 P-class dimer interface [polypeptide binding]; other site 1335307010675 active site 1335307010676 Cu2+ binding site [ion binding]; other site 1335307010677 Zn2+ binding site [ion binding]; other site 1335307010678 Domain of unknown function DUF59; Region: DUF59; pfam01883 1335307010679 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 1335307010680 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1335307010681 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1335307010682 ligand binding site [chemical binding]; other site 1335307010683 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1335307010684 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1335307010685 active site 1335307010686 HIGH motif; other site 1335307010687 KMSKS motif; other site 1335307010688 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1335307010689 tRNA binding surface [nucleotide binding]; other site 1335307010690 anticodon binding site; other site 1335307010691 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 1335307010692 dimer interface [polypeptide binding]; other site 1335307010693 putative tRNA-binding site [nucleotide binding]; other site 1335307010694 O-methyltransferase; Region: Methyltransf_2; pfam00891 1335307010695 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1335307010696 Family of unknown function (DUF490); Region: DUF490; pfam04357 1335307010697 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1335307010698 Surface antigen; Region: Bac_surface_Ag; pfam01103 1335307010699 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 1335307010700 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1335307010701 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1335307010702 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1335307010703 active site 1335307010704 ATP-binding site [chemical binding]; other site 1335307010705 pantoate-binding site; other site 1335307010706 HXXH motif; other site 1335307010707 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1335307010708 tetramerization interface [polypeptide binding]; other site 1335307010709 active site 1335307010710 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1335307010711 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 1335307010712 P-loop; other site 1335307010713 Magnesium ion binding site [ion binding]; other site 1335307010714 cobyric acid synthase; Provisional; Region: PRK00784 1335307010715 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 1335307010716 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1335307010717 catalytic triad [active] 1335307010718 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 1335307010719 homotrimer interface [polypeptide binding]; other site 1335307010720 Walker A motif; other site 1335307010721 GTP binding site [chemical binding]; other site 1335307010722 Walker B motif; other site 1335307010723 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 1335307010724 putative threonine-phosphate decarboxylase; Provisional; Region: PRK06959 1335307010725 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 1335307010726 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1335307010727 catalytic residue [active] 1335307010728 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 1335307010729 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 1335307010730 cobalamin binding residues [chemical binding]; other site 1335307010731 putative BtuC binding residues; other site 1335307010732 dimer interface [polypeptide binding]; other site 1335307010733 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 1335307010734 catalytic core [active] 1335307010735 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1335307010736 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1335307010737 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1335307010738 putative dimer interface [polypeptide binding]; other site 1335307010739 active site pocket [active] 1335307010740 putative cataytic base [active] 1335307010741 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1335307010742 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1335307010743 Walker A/P-loop; other site 1335307010744 ATP binding site [chemical binding]; other site 1335307010745 Q-loop/lid; other site 1335307010746 ABC transporter signature motif; other site 1335307010747 Walker B; other site 1335307010748 D-loop; other site 1335307010749 H-loop/switch region; other site 1335307010750 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 1335307010751 ABC-ATPase subunit interface; other site 1335307010752 dimer interface [polypeptide binding]; other site 1335307010753 putative PBP binding regions; other site 1335307010754 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1335307010755 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1335307010756 N-terminal plug; other site 1335307010757 ligand-binding site [chemical binding]; other site 1335307010758 UV radiation resistance protein and autophagy-related subunit 14; Region: Atg14; pfam10186 1335307010759 Cell division protein ZapA; Region: ZapA; pfam05164 1335307010760 EVE domain; Region: EVE; cl00728 1335307010761 Protein of unknown function (DUF541); Region: SIMPL; cl01077 1335307010762 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1335307010763 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1335307010764 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307010765 The C-terminal substrate binding domain of LysR-type transcriptional regulator, IlvR, involved in the biosynthesis of isoleucine, leucine and valine; contains type 2 periplasmic binding fold; Region: PBP2_IlvR; cd08453 1335307010766 putative dimerization interface [polypeptide binding]; other site 1335307010767 putative substrate binding pocket [chemical binding]; other site 1335307010768 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 1335307010769 Cytochrome c; Region: Cytochrom_C; cl11414 1335307010770 Protein of unknown function (DUF2486); Region: DUF2486; pfam10667 1335307010771 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 1335307010772 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1335307010773 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 1335307010774 interface (dimer of trimers) [polypeptide binding]; other site 1335307010775 Substrate-binding/catalytic site; other site 1335307010776 Zn-binding sites [ion binding]; other site 1335307010777 Predicted permeases [General function prediction only]; Region: COG0795 1335307010778 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1335307010779 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1335307010780 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1335307010781 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 1335307010782 putative active site [active] 1335307010783 Transposase domain (DUF772); Region: DUF772; pfam05598 1335307010784 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1335307010785 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1335307010786 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1335307010787 active site 1335307010788 SAM binding site [chemical binding]; other site 1335307010789 homodimer interface [polypeptide binding]; other site 1335307010790 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 1335307010791 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1335307010792 CysD dimerization site [polypeptide binding]; other site 1335307010793 G1 box; other site 1335307010794 putative GEF interaction site [polypeptide binding]; other site 1335307010795 GTP/Mg2+ binding site [chemical binding]; other site 1335307010796 Switch I region; other site 1335307010797 G2 box; other site 1335307010798 G3 box; other site 1335307010799 Switch II region; other site 1335307010800 G4 box; other site 1335307010801 G5 box; other site 1335307010802 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 1335307010803 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 1335307010804 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1335307010805 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 1335307010806 Active Sites [active] 1335307010807 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1335307010808 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 1335307010809 Active Sites [active] 1335307010810 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 1335307010811 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1335307010812 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1335307010813 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1335307010814 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 1335307010815 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307010816 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1335307010817 substrate binding site [chemical binding]; other site 1335307010818 dimerization interface [polypeptide binding]; other site 1335307010819 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1335307010820 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 1335307010821 non-specific DNA binding site [nucleotide binding]; other site 1335307010822 salt bridge; other site 1335307010823 sequence-specific DNA binding site [nucleotide binding]; other site 1335307010824 Cupin domain; Region: Cupin_2; pfam07883 1335307010825 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 1335307010826 intersubunit interface [polypeptide binding]; other site 1335307010827 active site 1335307010828 Zn2+ binding site [ion binding]; other site 1335307010829 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1335307010830 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1335307010831 inhibitor site; inhibition site 1335307010832 active site 1335307010833 dimer interface [polypeptide binding]; other site 1335307010834 catalytic residue [active] 1335307010835 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1335307010836 MOSC domain; Region: MOSC; pfam03473 1335307010837 3-alpha domain; Region: 3-alpha; pfam03475 1335307010838 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1335307010839 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307010840 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307010841 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 1335307010842 dimerization interface [polypeptide binding]; other site 1335307010843 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307010844 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307010845 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 1335307010846 dimerization interface [polypeptide binding]; other site 1335307010847 CopC domain; Region: CopC; pfam04234 1335307010848 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 1335307010849 RNA binding surface [nucleotide binding]; other site 1335307010850 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1335307010851 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1335307010852 active site 1335307010853 uracil binding [chemical binding]; other site 1335307010854 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1335307010855 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307010856 NAD(P) binding site [chemical binding]; other site 1335307010857 active site 1335307010858 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1335307010859 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 1335307010860 catalytic loop [active] 1335307010861 iron binding site [ion binding]; other site 1335307010862 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 1335307010863 FAD binding pocket [chemical binding]; other site 1335307010864 FAD binding motif [chemical binding]; other site 1335307010865 phosphate binding motif [ion binding]; other site 1335307010866 beta-alpha-beta structure motif; other site 1335307010867 NAD binding pocket [chemical binding]; other site 1335307010868 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 1335307010869 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 1335307010870 inhibitor-cofactor binding pocket; inhibition site 1335307010871 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307010872 catalytic residue [active] 1335307010873 putative acetyltransferase; Provisional; Region: PRK03624 1335307010874 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1335307010875 Uncharacterized conserved protein (DUF2278); Region: DUF2278; pfam10042 1335307010876 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1335307010877 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1335307010878 Walker A/P-loop; other site 1335307010879 ATP binding site [chemical binding]; other site 1335307010880 Q-loop/lid; other site 1335307010881 ABC transporter signature motif; other site 1335307010882 Walker B; other site 1335307010883 D-loop; other site 1335307010884 H-loop/switch region; other site 1335307010885 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1335307010886 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1335307010887 Walker A/P-loop; other site 1335307010888 ATP binding site [chemical binding]; other site 1335307010889 Q-loop/lid; other site 1335307010890 ABC transporter signature motif; other site 1335307010891 Walker B; other site 1335307010892 D-loop; other site 1335307010893 H-loop/switch region; other site 1335307010894 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1335307010895 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 1335307010896 TM-ABC transporter signature motif; other site 1335307010897 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1335307010898 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 1335307010899 TM-ABC transporter signature motif; other site 1335307010900 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1335307010901 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1335307010902 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1335307010903 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1335307010904 hypothetical protein; Reviewed; Region: PRK00024 1335307010905 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1335307010906 MPN+ (JAMM) motif; other site 1335307010907 Zinc-binding site [ion binding]; other site 1335307010908 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1335307010909 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1335307010910 L-aspartate oxidase; Provisional; Region: PRK09077 1335307010911 L-aspartate oxidase; Provisional; Region: PRK06175 1335307010912 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1335307010913 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 1335307010914 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 1335307010915 dimerization interface [polypeptide binding]; other site 1335307010916 active site 1335307010917 quinolinate synthetase; Provisional; Region: PRK09375 1335307010918 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 1335307010919 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1335307010920 Di-iron ligands [ion binding]; other site 1335307010921 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1335307010922 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1335307010923 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1335307010924 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 1335307010925 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 1335307010926 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1335307010927 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1335307010928 active site 1335307010929 substrate binding site [chemical binding]; other site 1335307010930 cosubstrate binding site; other site 1335307010931 catalytic site [active] 1335307010932 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1335307010933 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1335307010934 active site 1335307010935 Riboflavin kinase; Region: Flavokinase; smart00904 1335307010936 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1335307010937 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1335307010938 active site 1335307010939 HIGH motif; other site 1335307010940 nucleotide binding site [chemical binding]; other site 1335307010941 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1335307010942 active site 1335307010943 KMSKS motif; other site 1335307010944 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1335307010945 tRNA binding surface [nucleotide binding]; other site 1335307010946 anticodon binding site; other site 1335307010947 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1335307010948 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1335307010949 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1335307010950 Flavoprotein; Region: Flavoprotein; pfam02441 1335307010951 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1335307010952 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1335307010953 trimer interface [polypeptide binding]; other site 1335307010954 active site 1335307010955 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 1335307010956 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1335307010957 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1335307010958 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1335307010959 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1335307010960 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1335307010961 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 1335307010962 Clp amino terminal domain; Region: Clp_N; pfam02861 1335307010963 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 1335307010964 Walker A motif; other site 1335307010965 ATP binding site [chemical binding]; other site 1335307010966 Walker B motif; other site 1335307010967 arginine finger; other site 1335307010968 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 1335307010969 Walker A motif; other site 1335307010970 ATP binding site [chemical binding]; other site 1335307010971 Walker B motif; other site 1335307010972 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1335307010973 Uncharacterized conserved protein [Function unknown]; Region: COG2127 1335307010974 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 1335307010975 DNA-binding site [nucleotide binding]; DNA binding site 1335307010976 RNA-binding motif; other site 1335307010977 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1335307010978 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1335307010979 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1335307010980 isocitrate dehydrogenase; Validated; Region: PRK07362 1335307010981 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1335307010982 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1335307010983 pseudouridine synthase; Region: TIGR00093 1335307010984 active site 1335307010985 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1335307010986 elongation factor G; Reviewed; Region: PRK00007 1335307010987 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1335307010988 G1 box; other site 1335307010989 putative GEF interaction site [polypeptide binding]; other site 1335307010990 GTP/Mg2+ binding site [chemical binding]; other site 1335307010991 Switch I region; other site 1335307010992 G2 box; other site 1335307010993 G3 box; other site 1335307010994 Switch II region; other site 1335307010995 G4 box; other site 1335307010996 G5 box; other site 1335307010997 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 1335307010998 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 1335307010999 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 1335307011000 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1335307011001 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 1335307011002 active site 1335307011003 catalytic tetrad [active] 1335307011004 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1335307011005 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1335307011006 DNA-binding site [nucleotide binding]; DNA binding site 1335307011007 UTRA domain; Region: UTRA; pfam07702 1335307011008 Helix-turn-helix domain; Region: HTH_17; pfam12728 1335307011009 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 1335307011010 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_2; cd06102 1335307011011 dimer interface [polypeptide binding]; other site 1335307011012 active site 1335307011013 oxalacetate/citrate binding site [chemical binding]; other site 1335307011014 citrylCoA binding site [chemical binding]; other site 1335307011015 coenzyme A binding site [chemical binding]; other site 1335307011016 catalytic triad [active] 1335307011017 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 1335307011018 putative transporter; Provisional; Region: PRK10504 1335307011019 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 1335307011020 putative substrate translocation pore; other site 1335307011021 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 1335307011022 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 1335307011023 S-adenosylmethionine binding site [chemical binding]; other site 1335307011024 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 1335307011025 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1335307011026 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1335307011027 Protein of unknown function (DUF962); Region: DUF962; cl01879 1335307011028 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1335307011029 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 1335307011030 ligand binding site [chemical binding]; other site 1335307011031 flexible hinge region; other site 1335307011032 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 1335307011033 putative switch regulator; other site 1335307011034 non-specific DNA interactions [nucleotide binding]; other site 1335307011035 DNA binding site [nucleotide binding] 1335307011036 sequence specific DNA binding site [nucleotide binding]; other site 1335307011037 putative cAMP binding site [chemical binding]; other site 1335307011038 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1335307011039 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 1335307011040 Chromate transporter; Region: Chromate_transp; pfam02417 1335307011041 superoxide dismutase; Provisional; Region: PRK10543 1335307011042 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1335307011043 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1335307011044 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1335307011045 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 1335307011046 generic binding surface II; other site 1335307011047 generic binding surface I; other site 1335307011048 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 1335307011049 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1335307011050 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1335307011051 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1335307011052 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1335307011053 Ligand binding site; other site 1335307011054 oligomer interface; other site 1335307011055 adenylate kinase; Reviewed; Region: adk; PRK00279 1335307011056 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 1335307011057 AMP-binding site [chemical binding]; other site 1335307011058 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1335307011059 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307011060 NAD(P) binding site [chemical binding]; other site 1335307011061 active site 1335307011062 Uncharacterized conserved protein [Function unknown]; Region: COG2912 1335307011063 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1335307011064 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1335307011065 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1335307011066 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1335307011067 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 1335307011068 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1335307011069 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1335307011070 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1335307011071 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1335307011072 FAD binding domain; Region: FAD_binding_4; pfam01565 1335307011073 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1335307011074 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1335307011075 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1335307011076 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1335307011077 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 1335307011078 putative deacylase active site [active] 1335307011079 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1335307011080 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1335307011081 acyl-activating enzyme (AAE) consensus motif; other site 1335307011082 AMP binding site [chemical binding]; other site 1335307011083 active site 1335307011084 CoA binding site [chemical binding]; other site 1335307011085 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1335307011086 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 1335307011087 active site 1335307011088 Int/Topo IB signature motif; other site 1335307011089 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1335307011090 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 1335307011091 DNA binding site [nucleotide binding] 1335307011092 active site 1335307011093 epoxyqueuosine reductase; Region: TIGR00276 1335307011094 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1335307011095 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1335307011096 AMIN domain; Region: AMIN; pfam11741 1335307011097 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 1335307011098 active site 1335307011099 metal binding site [ion binding]; metal-binding site 1335307011100 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 1335307011101 EamA-like transporter family; Region: EamA; pfam00892 1335307011102 Pirin-related protein [General function prediction only]; Region: COG1741 1335307011103 Pirin; Region: Pirin; pfam02678 1335307011104 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1335307011105 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1335307011106 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 1335307011107 catalytic residues [active] 1335307011108 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1335307011109 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 1335307011110 putative ATP binding site [chemical binding]; other site 1335307011111 putative substrate interface [chemical binding]; other site 1335307011112 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1335307011113 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1335307011114 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1335307011115 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1335307011116 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 1335307011117 S-adenosylmethionine binding site [chemical binding]; other site 1335307011118 Protein of unknown function DUF72; Region: DUF72; pfam01904 1335307011119 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1335307011120 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1335307011121 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1335307011122 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 1335307011123 putative DNA binding site [nucleotide binding]; other site 1335307011124 putative Zn2+ binding site [ion binding]; other site 1335307011125 AsnC family; Region: AsnC_trans_reg; pfam01037 1335307011126 Putative cyclase; Region: Cyclase; cl00814 1335307011127 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 1335307011128 kynureninase; Region: kynureninase; TIGR01814 1335307011129 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1335307011130 catalytic residue [active] 1335307011131 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 1335307011132 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1335307011133 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1335307011134 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1335307011135 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1335307011136 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 1335307011137 NAD(P) binding site [chemical binding]; other site 1335307011138 catalytic residues [active] 1335307011139 benzoylformate decarboxylase; Reviewed; Region: PRK07092 1335307011140 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1335307011141 PYR/PP interface [polypeptide binding]; other site 1335307011142 dimer interface [polypeptide binding]; other site 1335307011143 TPP binding site [chemical binding]; other site 1335307011144 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1335307011145 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 1335307011146 TPP-binding site [chemical binding]; other site 1335307011147 dimer interface [polypeptide binding]; other site 1335307011148 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307011149 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307011150 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 1335307011151 dimerization interface [polypeptide binding]; other site 1335307011152 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1335307011153 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1335307011154 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1335307011155 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1335307011156 N- and C-terminal domain interface [polypeptide binding]; other site 1335307011157 D-xylulose kinase; Region: XylB; TIGR01312 1335307011158 active site 1335307011159 MgATP binding site [chemical binding]; other site 1335307011160 catalytic site [active] 1335307011161 metal binding site [ion binding]; metal-binding site 1335307011162 xylulose binding site [chemical binding]; other site 1335307011163 homodimer interface [polypeptide binding]; other site 1335307011164 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1335307011165 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1335307011166 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1335307011167 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 1335307011168 putative substrate translocation pore; other site 1335307011169 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1335307011170 Beta-lactamase; Region: Beta-lactamase; pfam00144 1335307011171 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307011172 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307011173 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_7; cd08476 1335307011174 putative effector binding pocket; other site 1335307011175 putative dimerization interface [polypeptide binding]; other site 1335307011176 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1335307011177 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 1335307011178 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1335307011179 Walker A/P-loop; other site 1335307011180 ATP binding site [chemical binding]; other site 1335307011181 Q-loop/lid; other site 1335307011182 ABC transporter signature motif; other site 1335307011183 Walker B; other site 1335307011184 D-loop; other site 1335307011185 H-loop/switch region; other site 1335307011186 TOBE domain; Region: TOBE; cl01440 1335307011187 TOBE domain; Region: TOBE_2; pfam08402 1335307011188 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 1335307011189 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1335307011190 active site 1335307011191 motif I; other site 1335307011192 motif II; other site 1335307011193 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 1335307011194 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1335307011195 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 1335307011196 dimer interface [polypeptide binding]; other site 1335307011197 conserved gate region; other site 1335307011198 putative PBP binding loops; other site 1335307011199 ABC-ATPase subunit interface; other site 1335307011200 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1335307011201 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 1335307011202 dimer interface [polypeptide binding]; other site 1335307011203 conserved gate region; other site 1335307011204 putative PBP binding loops; other site 1335307011205 ABC-ATPase subunit interface; other site 1335307011206 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1335307011207 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1335307011208 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 1335307011209 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 1335307011210 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1335307011211 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 1335307011212 substrate binding site [chemical binding]; other site 1335307011213 ATP binding site [chemical binding]; other site 1335307011214 sorbitol dehydrogenase; Provisional; Region: PRK07067 1335307011215 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307011216 NAD(P) binding site [chemical binding]; other site 1335307011217 active site 1335307011218 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1335307011219 metal binding site 2 [ion binding]; metal-binding site 1335307011220 putative DNA binding helix; other site 1335307011221 metal binding site 1 [ion binding]; metal-binding site 1335307011222 dimer interface [polypeptide binding]; other site 1335307011223 structural Zn2+ binding site [ion binding]; other site 1335307011224 Metal binding protein TroA_b. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: TroA_b; cd01020 1335307011225 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1335307011226 metal binding site [ion binding]; metal-binding site 1335307011227 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1335307011228 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1335307011229 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1335307011230 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 1335307011231 dimer interface [polypeptide binding]; other site 1335307011232 putative PBP binding regions; other site 1335307011233 ABC-ATPase subunit interface; other site 1335307011234 S-formylglutathione hydrolase; Region: PLN02442 1335307011235 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1335307011236 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1335307011237 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1335307011238 substrate binding site [chemical binding]; other site 1335307011239 catalytic Zn binding site [ion binding]; other site 1335307011240 NAD binding site [chemical binding]; other site 1335307011241 structural Zn binding site [ion binding]; other site 1335307011242 dimer interface [polypeptide binding]; other site 1335307011243 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1335307011244 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1335307011245 conserved cys residue [active] 1335307011246 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307011247 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307011248 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1335307011249 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1335307011250 nucleotide binding site [chemical binding]; other site 1335307011251 xanthine permease; Region: pbuX; TIGR03173 1335307011252 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 1335307011253 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1335307011254 Protein export membrane protein; Region: SecD_SecF; cl14618 1335307011255 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1335307011256 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 1335307011257 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1335307011258 HlyD family secretion protein; Region: HlyD_3; pfam13437 1335307011259 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 1335307011260 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1335307011261 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1335307011262 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1335307011263 hydrophobic ligand binding site; other site 1335307011264 Domain of unknown function (DUF427); Region: DUF427; pfam04248 1335307011265 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1335307011266 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1335307011267 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1335307011268 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 1335307011269 protein binding site [polypeptide binding]; other site 1335307011270 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 1335307011271 protein binding site [polypeptide binding]; other site 1335307011272 sensor protein QseC; Provisional; Region: PRK10337 1335307011273 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 1335307011274 ATP binding site [chemical binding]; other site 1335307011275 Mg2+ binding site [ion binding]; other site 1335307011276 G-X-G motif; other site 1335307011277 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 1335307011278 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 1335307011279 active site 1335307011280 phosphorylation site [posttranslational modification] 1335307011281 intermolecular recognition site; other site 1335307011282 dimerization interface [polypeptide binding]; other site 1335307011283 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 1335307011284 DNA binding site [nucleotide binding] 1335307011285 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 1335307011286 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1335307011287 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1335307011288 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; cl01053 1335307011289 active site 1335307011290 catalytic triad [active] 1335307011291 oxyanion hole [active] 1335307011292 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1335307011293 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1335307011294 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1335307011295 ATP-grasp domain; Region: ATP-grasp; pfam02222 1335307011296 AIR carboxylase; Region: AIRC; pfam00731 1335307011297 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1335307011298 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1335307011299 ATP binding site [chemical binding]; other site 1335307011300 active site 1335307011301 substrate binding site [chemical binding]; other site 1335307011302 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1335307011303 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 1335307011304 intersubunit interface [polypeptide binding]; other site 1335307011305 active site 1335307011306 zinc binding site [ion binding]; other site 1335307011307 Na+ binding site [ion binding]; other site 1335307011308 pyruvate kinase; Provisional; Region: PRK05826 1335307011309 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 1335307011310 domain interfaces; other site 1335307011311 active site 1335307011312 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1335307011313 Phosphoglycerate kinase; Region: PGK; pfam00162 1335307011314 substrate binding site [chemical binding]; other site 1335307011315 hinge regions; other site 1335307011316 ADP binding site [chemical binding]; other site 1335307011317 catalytic site [active] 1335307011318 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 1335307011319 AzlC protein; Region: AzlC; cl00570 1335307011320 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1335307011321 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 1335307011322 homodimer interface [polypeptide binding]; other site 1335307011323 substrate-cofactor binding pocket; other site 1335307011324 catalytic residue [active] 1335307011325 Zinc-finger domain; Region: zf-CHCC; cl01821 1335307011326 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1335307011327 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1335307011328 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1335307011329 putative active site [active] 1335307011330 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 1335307011331 SnoaL-like domain; Region: SnoaL_3; pfam13474 1335307011332 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 1335307011333 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 1335307011334 Peptidase family M48; Region: Peptidase_M48; pfam01435 1335307011335 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 1335307011336 trimer interface [polypeptide binding]; other site 1335307011337 dimer interface [polypeptide binding]; other site 1335307011338 putative active site [active] 1335307011339 Gram-negative bacterial tonB protein; Region: TonB; cl10048 1335307011340 hypothetical protein; Provisional; Region: PRK11667 1335307011341 O-Antigen ligase; Region: Wzy_C; pfam04932 1335307011342 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 1335307011343 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 1335307011344 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1335307011345 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1335307011346 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1335307011347 CoA binding domain; Region: CoA_binding; smart00881 1335307011348 CoA-ligase; Region: Ligase_CoA; pfam00549 1335307011349 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1335307011350 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1335307011351 CoA-ligase; Region: Ligase_CoA; pfam00549 1335307011352 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 1335307011353 recombination regulator RecX; Provisional; Region: recX; PRK14136 1335307011354 recombinase A; Provisional; Region: recA; PRK09354 1335307011355 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 1335307011356 hexamer interface [polypeptide binding]; other site 1335307011357 Walker A motif; other site 1335307011358 ATP binding site [chemical binding]; other site 1335307011359 Walker B motif; other site 1335307011360 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1335307011361 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 1335307011362 active site 1335307011363 phosphorylation site [posttranslational modification] 1335307011364 intermolecular recognition site; other site 1335307011365 dimerization interface [polypeptide binding]; other site 1335307011366 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 1335307011367 DNA binding site [nucleotide binding] 1335307011368 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1335307011369 HAMP domain; Region: HAMP; pfam00672 1335307011370 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 1335307011371 dimer interface [polypeptide binding]; other site 1335307011372 phosphorylation site [posttranslational modification] 1335307011373 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 1335307011374 ATP binding site [chemical binding]; other site 1335307011375 Mg2+ binding site [ion binding]; other site 1335307011376 G-X-G motif; other site 1335307011377 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 1335307011378 putative substrate translocation pore; other site 1335307011379 putative transposase OrfB; Reviewed; Region: PHA02517 1335307011380 HTH-like domain; Region: HTH_21; pfam13276 1335307011381 Integrase core domain; Region: rve; pfam00665 1335307011382 Integrase core domain; Region: rve_3; pfam13683 1335307011383 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1335307011384 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1335307011385 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1335307011386 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 1335307011387 DNA-binding interface [nucleotide binding]; DNA binding site 1335307011388 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 1335307011389 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 1335307011390 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 1335307011391 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 1335307011392 WYL domain; Region: WYL; pfam13280 1335307011393 BetR domain; Region: BetR; pfam08667 1335307011394 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1335307011395 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 1335307011396 active site 1335307011397 phosphorylation site [posttranslational modification] 1335307011398 intermolecular recognition site; other site 1335307011399 dimerization interface [polypeptide binding]; other site 1335307011400 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 1335307011401 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1335307011402 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 1335307011403 dimer interface [polypeptide binding]; other site 1335307011404 phosphorylation site [posttranslational modification] 1335307011405 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 1335307011406 ATP binding site [chemical binding]; other site 1335307011407 Mg2+ binding site [ion binding]; other site 1335307011408 G-X-G motif; other site 1335307011409 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 1335307011410 Response regulator receiver domain; Region: Response_reg; pfam00072 1335307011411 active site 1335307011412 phosphorylation site [posttranslational modification] 1335307011413 intermolecular recognition site; other site 1335307011414 dimerization interface [polypeptide binding]; other site 1335307011415 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307011416 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307011417 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1335307011418 putative effector binding pocket; other site 1335307011419 putative dimerization interface [polypeptide binding]; other site 1335307011420 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1335307011421 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 1335307011422 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 1335307011423 active site 1335307011424 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1335307011425 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 1335307011426 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1335307011427 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1335307011428 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 1335307011429 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1335307011430 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 1335307011431 metal binding site [ion binding]; metal-binding site 1335307011432 substrate binding pocket [chemical binding]; other site 1335307011433 thiamine pyrophosphate protein; Provisional; Region: PRK08273 1335307011434 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1335307011435 PYR/PP interface [polypeptide binding]; other site 1335307011436 dimer interface [polypeptide binding]; other site 1335307011437 tetramer interface [polypeptide binding]; other site 1335307011438 TPP binding site [chemical binding]; other site 1335307011439 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1335307011440 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 1335307011441 TPP-binding site [chemical binding]; other site 1335307011442 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1335307011443 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 1335307011444 Cytochrome c; Region: Cytochrom_C; pfam00034 1335307011445 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1335307011446 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 1335307011447 D-pathway; other site 1335307011448 Putative ubiquinol binding site [chemical binding]; other site 1335307011449 Low-spin heme (heme b) binding site [chemical binding]; other site 1335307011450 Putative water exit pathway; other site 1335307011451 Binuclear center (heme o3/CuB) [ion binding]; other site 1335307011452 K-pathway; other site 1335307011453 Putative proton exit pathway; other site 1335307011454 Heme-copper oxidase subunit III subfamily. 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; Region: Heme_Cu_Oxidase_III_2; cd02865 1335307011455 Subunit I/III interface [polypeptide binding]; other site 1335307011456 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1335307011457 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1335307011458 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1335307011459 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1335307011460 Transglycosylase; Region: Transgly; cl17702 1335307011461 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1335307011462 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1335307011463 active site 1335307011464 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1335307011465 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 1335307011466 active site 1335307011467 Erythromycin esterase; Region: Erythro_esteras; pfam05139 1335307011468 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 1335307011469 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 1335307011470 dimer interface [polypeptide binding]; other site 1335307011471 conserved gate region; other site 1335307011472 putative PBP binding loops; other site 1335307011473 ABC-ATPase subunit interface; other site 1335307011474 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 1335307011475 dimer interface [polypeptide binding]; other site 1335307011476 ABC-ATPase subunit interface; other site 1335307011477 putative PBP binding loops; other site 1335307011478 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1335307011479 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1335307011480 Walker A/P-loop; other site 1335307011481 ATP binding site [chemical binding]; other site 1335307011482 Q-loop/lid; other site 1335307011483 ABC transporter signature motif; other site 1335307011484 Walker B; other site 1335307011485 D-loop; other site 1335307011486 H-loop/switch region; other site 1335307011487 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 1335307011488 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 1335307011489 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 1335307011490 active site residue [active] 1335307011491 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 1335307011492 dimerization interface [polypeptide binding]; other site 1335307011493 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1335307011494 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1335307011495 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1335307011496 FAD binding domain; Region: FAD_binding_4; pfam01565 1335307011497 Cholesterol oxidase, substrate-binding; Region: Chol_subst-bind; pfam09129 1335307011498 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 1335307011499 PAS domain; Region: PAS_9; pfam13426 1335307011500 putative active site [active] 1335307011501 heme pocket [chemical binding]; other site 1335307011502 HAMP domain; Region: HAMP; pfam00672 1335307011503 dimerization interface [polypeptide binding]; other site 1335307011504 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1335307011505 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1335307011506 dimer interface [polypeptide binding]; other site 1335307011507 putative CheW interface [polypeptide binding]; other site 1335307011508 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 1335307011509 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1335307011510 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 1335307011511 active site 1335307011512 phosphorylation site [posttranslational modification] 1335307011513 intermolecular recognition site; other site 1335307011514 dimerization interface [polypeptide binding]; other site 1335307011515 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1335307011516 Zn2+ binding site [ion binding]; other site 1335307011517 Mg2+ binding site [ion binding]; other site 1335307011518 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 1335307011519 ATP binding site [chemical binding]; other site 1335307011520 Mg2+ binding site [ion binding]; other site 1335307011521 G-X-G motif; other site 1335307011522 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1335307011523 active site 1335307011524 metal binding site [ion binding]; metal-binding site 1335307011525 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 1335307011526 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1335307011527 galactonate dehydratase; Provisional; Region: PRK14017 1335307011528 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 1335307011529 putative active site pocket [active] 1335307011530 putative metal binding site [ion binding]; other site 1335307011531 Copper resistance protein D; Region: CopD; pfam05425 1335307011532 Cytochrome c; Region: Cytochrom_C; cl11414 1335307011533 Cytochrome c; Region: Cytochrom_C; cl11414 1335307011534 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1335307011535 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1335307011536 Cytochrome c; Region: Cytochrom_C; pfam00034 1335307011537 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 1335307011538 ATP binding site [chemical binding]; other site 1335307011539 Mg++ binding site [ion binding]; other site 1335307011540 motif III; other site 1335307011541 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 1335307011542 nucleotide binding region [chemical binding]; other site 1335307011543 ATP-binding site [chemical binding]; other site 1335307011544 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1335307011545 dinuclear metal binding motif [ion binding]; other site 1335307011546 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1335307011547 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1335307011548 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1335307011549 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1335307011550 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1335307011551 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1335307011552 glycerol kinase; Provisional; Region: glpK; PRK00047 1335307011553 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1335307011554 N- and C-terminal domain interface [polypeptide binding]; other site 1335307011555 active site 1335307011556 MgATP binding site [chemical binding]; other site 1335307011557 catalytic site [active] 1335307011558 metal binding site [ion binding]; metal-binding site 1335307011559 glycerol binding site [chemical binding]; other site 1335307011560 homotetramer interface [polypeptide binding]; other site 1335307011561 homodimer interface [polypeptide binding]; other site 1335307011562 FBP binding site [chemical binding]; other site 1335307011563 protein IIAGlc interface [polypeptide binding]; other site 1335307011564 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 1335307011565 amphipathic channel; other site 1335307011566 Asn-Pro-Ala signature motifs; other site 1335307011567 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 1335307011568 homotrimer interaction site [polypeptide binding]; other site 1335307011569 putative active site [active] 1335307011570 5-enolpyruvylshikimate-3-phosphate synthase [Amino acid transport and metabolism]; Region: AroA; COG0128 1335307011571 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 1335307011572 putative active site [active] 1335307011573 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1335307011574 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 1335307011575 hinge; other site 1335307011576 active site 1335307011577 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 1335307011578 active site 1335307011579 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 1335307011580 dimer interface [polypeptide binding]; other site 1335307011581 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 1335307011582 Ligand Binding Site [chemical binding]; other site 1335307011583 Molecular Tunnel; other site 1335307011584 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1335307011585 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1335307011586 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1335307011587 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 1335307011588 motif II; other site 1335307011589 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 1335307011590 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 1335307011591 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1335307011592 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 1335307011593 non-specific DNA binding site [nucleotide binding]; other site 1335307011594 salt bridge; other site 1335307011595 sequence-specific DNA binding site [nucleotide binding]; other site 1335307011596 Cupin domain; Region: Cupin_2; pfam07883 1335307011597 MFS transport protein AraJ; Provisional; Region: PRK10091 1335307011598 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 1335307011599 putative substrate translocation pore; other site 1335307011600 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307011601 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307011602 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 1335307011603 putative effector binding pocket; other site 1335307011604 dimerization interface [polypeptide binding]; other site 1335307011605 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1335307011606 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1335307011607 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 1335307011608 FeS/SAM binding site; other site 1335307011609 TRAM domain; Region: TRAM; pfam01938 1335307011610 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1335307011611 PhoH-like protein; Region: PhoH; pfam02562 1335307011612 unkown domain/putative metalloprotease fusion protein; Provisional; Region: PRK13963 1335307011613 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 1335307011614 putative active site pocket [active] 1335307011615 dimerization interface [polypeptide binding]; other site 1335307011616 putative catalytic residue [active] 1335307011617 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1335307011618 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 1335307011619 Transporter associated domain; Region: CorC_HlyC; smart01091 1335307011620 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1335307011621 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1335307011622 putative active site [active] 1335307011623 catalytic triad [active] 1335307011624 putative dimer interface [polypeptide binding]; other site 1335307011625 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 1335307011626 dimer interface [polypeptide binding]; other site 1335307011627 motif 1; other site 1335307011628 active site 1335307011629 motif 2; other site 1335307011630 motif 3; other site 1335307011631 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1335307011632 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 1335307011633 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 1335307011634 active site 1335307011635 motif I; other site 1335307011636 motif II; other site 1335307011637 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1335307011638 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1335307011639 putative acyl-acceptor binding pocket; other site 1335307011640 Protein of unknown function DUF45; Region: DUF45; pfam01863 1335307011641 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1335307011642 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1335307011643 dimer interface [polypeptide binding]; other site 1335307011644 active site 1335307011645 metal binding site [ion binding]; metal-binding site 1335307011646 glutathione binding site [chemical binding]; other site 1335307011647 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 1335307011648 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1335307011649 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1335307011650 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK01909 1335307011651 SurA N-terminal domain; Region: SurA_N; pfam09312 1335307011652 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 1335307011653 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1335307011654 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1335307011655 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1335307011656 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1335307011657 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 1335307011658 Phosphotransferase enzyme family; Region: APH; pfam01636 1335307011659 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 1335307011660 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1335307011661 Substrate binding site; other site 1335307011662 metal-binding site 1335307011663 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1335307011664 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1335307011665 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307011666 Walker A/P-loop; other site 1335307011667 ATP binding site [chemical binding]; other site 1335307011668 Q-loop/lid; other site 1335307011669 ABC transporter signature motif; other site 1335307011670 Walker B; other site 1335307011671 D-loop; other site 1335307011672 H-loop/switch region; other site 1335307011673 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 1335307011674 conserved hypothetical protein; Region: nitr_red_assoc; TIGR02664 1335307011675 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1335307011676 enoyl-CoA hydratase; Provisional; Region: PRK06688 1335307011677 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 1335307011678 substrate binding site [chemical binding]; other site 1335307011679 oxyanion hole (OAH) forming residues; other site 1335307011680 trimer interface [polypeptide binding]; other site 1335307011681 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 1335307011682 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 1335307011683 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 1335307011684 dimer interface [polypeptide binding]; other site 1335307011685 active site 1335307011686 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1335307011687 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1335307011688 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1335307011689 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1335307011690 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 1335307011691 substrate binding site [chemical binding]; other site 1335307011692 oxyanion hole (OAH) forming residues; other site 1335307011693 trimer interface [polypeptide binding]; other site 1335307011694 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1335307011695 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1335307011696 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 1335307011697 FAD binding site [chemical binding]; other site 1335307011698 substrate binding site [chemical binding]; other site 1335307011699 catalytic residues [active] 1335307011700 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1335307011701 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1335307011702 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1335307011703 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1335307011704 PLD-like domain; Region: PLDc_2; pfam13091 1335307011705 putative active site [active] 1335307011706 catalytic site [active] 1335307011707 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1335307011708 PLD-like domain; Region: PLDc_2; pfam13091 1335307011709 putative active site [active] 1335307011710 catalytic site [active] 1335307011711 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_7; cd04664 1335307011712 nudix motif; other site 1335307011713 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1335307011714 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 1335307011715 dimer interface [polypeptide binding]; other site 1335307011716 anticodon binding site; other site 1335307011717 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 1335307011718 homodimer interface [polypeptide binding]; other site 1335307011719 motif 1; other site 1335307011720 active site 1335307011721 motif 2; other site 1335307011722 GAD domain; Region: GAD; pfam02938 1335307011723 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 1335307011724 motif 3; other site 1335307011725 Uncharacterized conserved protein [Function unknown]; Region: COG2928 1335307011726 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 1335307011727 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 1335307011728 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 1335307011729 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1335307011730 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1335307011731 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1335307011732 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1335307011733 Tim44-like domain; Region: Tim44; pfam04280 1335307011734 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1335307011735 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 1335307011736 S-adenosylmethionine binding site [chemical binding]; other site 1335307011737 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 1335307011738 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1335307011739 nucleotide binding site/active site [active] 1335307011740 HIT family signature motif; other site 1335307011741 catalytic residue [active] 1335307011742 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 1335307011743 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1335307011744 FAD binding domain; Region: FAD_binding_4; pfam01565 1335307011745 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1335307011746 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 1335307011747 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1335307011748 Cysteine-rich domain; Region: CCG; pfam02754 1335307011749 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 1335307011750 threonine dehydratase; Reviewed; Region: PRK09224 1335307011751 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 1335307011752 tetramer interface [polypeptide binding]; other site 1335307011753 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307011754 catalytic residue [active] 1335307011755 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1335307011756 putative Ile/Val binding site [chemical binding]; other site 1335307011757 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1335307011758 putative Ile/Val binding site [chemical binding]; other site 1335307011759 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1335307011760 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1335307011761 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1335307011762 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 1335307011763 homotrimer interaction site [polypeptide binding]; other site 1335307011764 putative active site [active] 1335307011765 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1335307011766 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 1335307011767 active site 1335307011768 putative substrate binding pocket [chemical binding]; other site 1335307011769 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1335307011770 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1335307011771 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 1335307011772 putative active site [active] 1335307011773 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 1335307011774 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 1335307011775 dimer interface [polypeptide binding]; other site 1335307011776 active site 1335307011777 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1335307011778 substrate binding site [chemical binding]; other site 1335307011779 catalytic residue [active] 1335307011780 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1335307011781 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 1335307011782 conserved cys residue [active] 1335307011783 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1335307011784 MarR family; Region: MarR; pfam01047 1335307011785 MarR family; Region: MarR_2; cl17246 1335307011786 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 1335307011787 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1335307011788 putative substrate translocation pore; other site 1335307011789 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 1335307011790 EcsC protein family; Region: EcsC; pfam12787 1335307011791 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1335307011792 CHRD domain; Region: CHRD; pfam07452 1335307011793 Transposase domain (DUF772); Region: DUF772; pfam05598 1335307011794 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1335307011795 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1335307011796 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 1335307011797 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 1335307011798 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1335307011799 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1335307011800 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 1335307011801 SLBB domain; Region: SLBB; pfam10531 1335307011802 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 1335307011803 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1335307011804 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1335307011805 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; cl00047 1335307011806 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 1335307011807 non-specific DNA interactions [nucleotide binding]; other site 1335307011808 DNA binding site [nucleotide binding] 1335307011809 sequence specific DNA binding site [nucleotide binding]; other site 1335307011810 putative cAMP binding site [chemical binding]; other site 1335307011811 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1335307011812 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 1335307011813 ligand binding site [chemical binding]; other site 1335307011814 flexible hinge region; other site 1335307011815 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1335307011816 acyl carrier protein; Provisional; Region: PRK07081 1335307011817 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1335307011818 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1335307011819 active site 1335307011820 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1335307011821 active site 1335307011822 Gly_His_Pro_Ser_Thr_tRNA synthetase class II core domain. This domain is the core catalytic domain of tRNA synthetases of the subgroup containing glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. It is primarily responsible for ATP-dependent...; Region: Gly_His_Pro_Ser_Thr_tRS_core; cd00670 1335307011823 dimer interface [polypeptide binding]; other site 1335307011824 motif 1; other site 1335307011825 active site 1335307011826 motif 2; other site 1335307011827 motif 3; other site 1335307011828 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 1335307011829 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 1335307011830 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1335307011831 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 1335307011832 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1335307011833 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 1335307011834 Walker A motif; other site 1335307011835 ATP binding site [chemical binding]; other site 1335307011836 Walker B motif; other site 1335307011837 arginine finger; other site 1335307011838 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 1335307011839 active site 1335307011840 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1335307011841 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 1335307011842 putative ADP-binding pocket [chemical binding]; other site 1335307011843 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1335307011844 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1335307011845 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1335307011846 Substrate binding site; other site 1335307011847 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1335307011848 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 1335307011849 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1335307011850 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1335307011851 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1335307011852 PAS domain; Region: PAS; smart00091 1335307011853 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1335307011854 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1335307011855 metal binding site [ion binding]; metal-binding site 1335307011856 active site 1335307011857 I-site; other site 1335307011858 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 1335307011859 aldolase II superfamily protein; Provisional; Region: PRK07044 1335307011860 intersubunit interface [polypeptide binding]; other site 1335307011861 active site 1335307011862 Zn2+ binding site [ion binding]; other site 1335307011863 bacteriocin biosynthesis cyclodehydratase domain; Region: cyclo_dehyd_2; TIGR03882 1335307011864 YcaO-like family; Region: YcaO; pfam02624 1335307011865 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 1335307011866 ribosomal natural product, two-chain TOMM family; Region: RNP_Burkhold; TIGR03795 1335307011867 ribosomal natural product, two-chain TOMM family; Region: RNP_Burkhold; TIGR03795 1335307011868 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1335307011869 active site 1335307011870 ATP binding site [chemical binding]; other site 1335307011871 substrate binding site [chemical binding]; other site 1335307011872 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 1335307011873 activation loop (A-loop); other site 1335307011874 cyclase homology domain; Region: CHD; cd07302 1335307011875 dimer interface [polypeptide binding]; other site 1335307011876 nucleotidyl binding site; other site 1335307011877 metal binding site [ion binding]; metal-binding site 1335307011878 AAA ATPase domain; Region: AAA_16; pfam13191 1335307011879 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 1335307011880 phosphopeptide binding site; other site 1335307011881 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1335307011882 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1335307011883 substrate binding pocket [chemical binding]; other site 1335307011884 chain length determination region; other site 1335307011885 substrate-Mg2+ binding site; other site 1335307011886 catalytic residues [active] 1335307011887 aspartate-rich region 1; other site 1335307011888 active site lid residues [active] 1335307011889 aspartate-rich region 2; other site 1335307011890 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1335307011891 putative catalytic site [active] 1335307011892 putative metal binding site [ion binding]; other site 1335307011893 putative phosphate binding site [ion binding]; other site 1335307011894 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1335307011895 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 1335307011896 Family description; Region: VCBS; pfam13517 1335307011897 Family description; Region: VCBS; pfam13517 1335307011898 Family description; Region: VCBS; pfam13517 1335307011899 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 1335307011900 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 1335307011901 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1335307011902 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1335307011903 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1335307011904 Integrase core domain; Region: rve; pfam00665 1335307011905 Integrase core domain; Region: rve_3; pfam13683 1335307011906 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1335307011907 Transposase; Region: HTH_Tnp_1; pfam01527 1335307011908 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1335307011909 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1335307011910 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1335307011911 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 1335307011912 dimer interface [polypeptide binding]; other site 1335307011913 ssDNA binding site [nucleotide binding]; other site 1335307011914 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1335307011915 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 1335307011916 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1335307011917 putative substrate translocation pore; other site 1335307011918 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1335307011919 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1335307011920 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1335307011921 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1335307011922 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1335307011923 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1335307011924 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1335307011925 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1335307011926 putative active site [active] 1335307011927 putative substrate binding site [chemical binding]; other site 1335307011928 putative cosubstrate binding site; other site 1335307011929 catalytic site [active] 1335307011930 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 1335307011931 nudix motif; other site 1335307011932 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1335307011933 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1335307011934 active site 1335307011935 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1335307011936 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1335307011937 TrkA-N domain; Region: TrkA_N; pfam02254 1335307011938 TrkA-C domain; Region: TrkA_C; pfam02080 1335307011939 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1335307011940 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 1335307011941 putative active site [active] 1335307011942 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 1335307011943 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1335307011944 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 1335307011945 active site 1335307011946 motif I; other site 1335307011947 motif II; other site 1335307011948 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 1335307011949 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1335307011950 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1335307011951 OstA-like protein; Region: OstA; pfam03968 1335307011952 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1335307011953 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1335307011954 Walker A/P-loop; other site 1335307011955 ATP binding site [chemical binding]; other site 1335307011956 Q-loop/lid; other site 1335307011957 ABC transporter signature motif; other site 1335307011958 Walker B; other site 1335307011959 D-loop; other site 1335307011960 H-loop/switch region; other site 1335307011961 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1335307011962 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1335307011963 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1335307011964 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 1335307011965 30S subunit binding site; other site 1335307011966 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 1335307011967 active site 1335307011968 phosphorylation site [posttranslational modification] 1335307011969 HPr kinase/phosphorylase; Provisional; Region: PRK05428 1335307011970 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 1335307011971 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 1335307011972 Hpr binding site; other site 1335307011973 active site 1335307011974 homohexamer subunit interaction site [polypeptide binding]; other site 1335307011975 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1335307011976 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 1335307011977 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1335307011978 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1335307011979 minor groove reading motif; other site 1335307011980 helix-hairpin-helix signature motif; other site 1335307011981 active site 1335307011982 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 1335307011983 DNA binding and oxoG recognition site [nucleotide binding] 1335307011984 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1335307011985 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1335307011986 DNA binding site [nucleotide binding] 1335307011987 catalytic residue [active] 1335307011988 H2TH interface [polypeptide binding]; other site 1335307011989 putative catalytic residues [active] 1335307011990 turnover-facilitating residue; other site 1335307011991 intercalation triad [nucleotide binding]; other site 1335307011992 8OG recognition residue [nucleotide binding]; other site 1335307011993 putative reading head residues; other site 1335307011994 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1335307011995 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1335307011996 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 1335307011997 binding surface 1335307011998 TPR motif; other site 1335307011999 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 1335307012000 binding surface 1335307012001 TPR motif; other site 1335307012002 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 1335307012003 binding surface 1335307012004 TPR motif; other site 1335307012005 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1335307012006 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1335307012007 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1335307012008 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1335307012009 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1335307012010 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1335307012011 active site 1335307012012 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1335307012013 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1335307012014 5S rRNA interface [nucleotide binding]; other site 1335307012015 CTC domain interface [polypeptide binding]; other site 1335307012016 L16 interface [polypeptide binding]; other site 1335307012017 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 1335307012018 putative active site [active] 1335307012019 catalytic residue [active] 1335307012020 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1335307012021 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 1335307012022 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307012023 homodimer interface [polypeptide binding]; other site 1335307012024 catalytic residue [active] 1335307012025 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1335307012026 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1335307012027 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1335307012028 active site 1335307012029 (T/H)XGH motif; other site 1335307012030 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1335307012031 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 1335307012032 S-adenosylmethionine binding site [chemical binding]; other site 1335307012033 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1335307012034 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1335307012035 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 1335307012036 P loop; other site 1335307012037 GTP binding site [chemical binding]; other site 1335307012038 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1335307012039 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 1335307012040 C-terminal domain interface [polypeptide binding]; other site 1335307012041 GSH binding site (G-site) [chemical binding]; other site 1335307012042 putative dimer interface [polypeptide binding]; other site 1335307012043 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1335307012044 dimer interface [polypeptide binding]; other site 1335307012045 N-terminal domain interface [polypeptide binding]; other site 1335307012046 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1335307012047 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 1335307012048 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1335307012049 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1335307012050 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1335307012051 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1335307012052 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 1335307012053 [2Fe-2S] cluster binding site [ion binding]; other site 1335307012054 Molybdopterin oxidoreductase Fe4S4 domain; Region: Molybdop_Fe4S4; smart00926 1335307012055 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1335307012056 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 1335307012057 molybdopterin cofactor binding site; other site 1335307012058 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 1335307012059 molybdopterin cofactor binding site; other site 1335307012060 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1335307012061 glycosyl transferase family protein; Provisional; Region: PRK08136 1335307012062 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1335307012063 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1335307012064 Coenzyme A binding pocket [chemical binding]; other site 1335307012065 2-isopropylmalate synthase; Validated; Region: PRK03739 1335307012066 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1335307012067 active site 1335307012068 catalytic residues [active] 1335307012069 metal binding site [ion binding]; metal-binding site 1335307012070 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 1335307012071 SnoaL-like domain; Region: SnoaL_3; pfam13474 1335307012072 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1335307012073 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1335307012074 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1335307012075 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1335307012076 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 1335307012077 DNA binding residues [nucleotide binding] 1335307012078 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1335307012079 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1335307012080 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1335307012081 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1335307012082 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1335307012083 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1335307012084 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 1335307012085 Putative carbohydrate binding domain; Region: CHB_HEX; smart01081 1335307012086 N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]; Region: Chb; COG3525 1335307012087 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 1335307012088 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 1335307012089 active site 1335307012090 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1335307012091 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 1335307012092 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 1335307012093 active site turn [active] 1335307012094 phosphorylation site [posttranslational modification] 1335307012095 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1335307012096 HPr interaction site; other site 1335307012097 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1335307012098 active site 1335307012099 phosphorylation site [posttranslational modification] 1335307012100 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 1335307012101 dimerization domain swap beta strand [polypeptide binding]; other site 1335307012102 regulatory protein interface [polypeptide binding]; other site 1335307012103 active site 1335307012104 regulatory phosphorylation site [posttranslational modification]; other site 1335307012105 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1335307012106 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1335307012107 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1335307012108 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1335307012109 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1335307012110 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 1335307012111 dimer interface [polypeptide binding]; other site 1335307012112 active site 1335307012113 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 1335307012114 dimer interface [polypeptide binding]; other site 1335307012115 active site 1335307012116 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1335307012117 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 1335307012118 active site 1335307012119 dimer interface [polypeptide binding]; other site 1335307012120 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1335307012121 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1335307012122 DNA-binding site [nucleotide binding]; DNA binding site 1335307012123 UTRA domain; Region: UTRA; pfam07702 1335307012124 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1335307012125 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307012126 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1335307012127 dimerization interface [polypeptide binding]; other site 1335307012128 substrate binding pocket [chemical binding]; other site 1335307012129 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 1335307012130 acyl-CoA synthetase; Validated; Region: PRK09192 1335307012131 acyl-activating enzyme (AAE) consensus motif; other site 1335307012132 active site 1335307012133 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1335307012134 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1335307012135 dinuclear metal binding motif [ion binding]; other site 1335307012136 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 1335307012137 active site 1335307012138 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Ornithine and Diaminopimelate Decarboxylases, and Related Enzymes; Region: PLPDE_III_ODC_DapDC_like; cd06810 1335307012139 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1335307012140 dimer interface [polypeptide binding]; other site 1335307012141 active site 1335307012142 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1335307012143 catalytic residues [active] 1335307012144 substrate binding site [chemical binding]; other site 1335307012145 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1335307012146 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1335307012147 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1335307012148 acyl-activating enzyme (AAE) consensus motif; other site 1335307012149 acyl-activating enzyme (AAE) consensus motif; other site 1335307012150 AMP binding site [chemical binding]; other site 1335307012151 active site 1335307012152 CoA binding site [chemical binding]; other site 1335307012153 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 1335307012154 active site 1335307012155 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1335307012156 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1335307012157 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1335307012158 active site 1335307012159 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1335307012160 Citrate synthase; Region: Citrate_synt; pfam00285 1335307012161 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 1335307012162 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 1335307012163 citrylCoA binding site [chemical binding]; other site 1335307012164 oxalacetate binding site [chemical binding]; other site 1335307012165 coenzyme A binding site [chemical binding]; other site 1335307012166 catalytic triad [active] 1335307012167 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1335307012168 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 1335307012169 S-adenosylmethionine binding site [chemical binding]; other site 1335307012170 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; cl00184 1335307012171 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 1335307012172 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307012173 Walker A/P-loop; other site 1335307012174 ATP binding site [chemical binding]; other site 1335307012175 Q-loop/lid; other site 1335307012176 ABC transporter signature motif; other site 1335307012177 Walker B; other site 1335307012178 D-loop; other site 1335307012179 H-loop/switch region; other site 1335307012180 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1335307012181 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1335307012182 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 1335307012183 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 1335307012184 inhibitor-cofactor binding pocket; inhibition site 1335307012185 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307012186 catalytic residue [active] 1335307012187 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 1335307012188 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1335307012189 putative di-iron ligands [ion binding]; other site 1335307012190 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 1335307012191 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1335307012192 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1335307012193 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1335307012194 putative active site [active] 1335307012195 putative PHP Thumb interface [polypeptide binding]; other site 1335307012196 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 1335307012197 generic binding surface II; other site 1335307012198 generic binding surface I; other site 1335307012199 DNA Polymerase Y-family; Region: PolY_like; cd03468 1335307012200 active site 1335307012201 DNA binding site [nucleotide binding] 1335307012202 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1335307012203 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307012204 Walker A/P-loop; other site 1335307012205 ATP binding site [chemical binding]; other site 1335307012206 Q-loop/lid; other site 1335307012207 ABC transporter signature motif; other site 1335307012208 Walker B; other site 1335307012209 D-loop; other site 1335307012210 H-loop/switch region; other site 1335307012211 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1335307012212 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 1335307012213 TM-ABC transporter signature motif; other site 1335307012214 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1335307012215 zinc binding site [ion binding]; other site 1335307012216 putative ligand binding site [chemical binding]; other site 1335307012217 Transposase domain (DUF772); Region: DUF772; pfam05598 1335307012218 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1335307012219 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1335307012220 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1335307012221 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1335307012222 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 1335307012223 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 1335307012224 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1335307012225 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1335307012226 dimer interface [polypeptide binding]; other site 1335307012227 putative CheW interface [polypeptide binding]; other site 1335307012228 YCII-related domain; Region: YCII; cl00999 1335307012229 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1335307012230 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 1335307012231 Cu(I) binding site [ion binding]; other site 1335307012232 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1335307012233 UbiA prenyltransferase family; Region: UbiA; pfam01040 1335307012234 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1335307012235 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1335307012236 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 1335307012237 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 1335307012238 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 1335307012239 Subunit III/VIIa interface [polypeptide binding]; other site 1335307012240 Phospholipid binding site [chemical binding]; other site 1335307012241 Subunit I/III interface [polypeptide binding]; other site 1335307012242 Subunit III/VIb interface [polypeptide binding]; other site 1335307012243 Subunit III/VIa interface; other site 1335307012244 Subunit III/Vb interface [polypeptide binding]; other site 1335307012245 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 1335307012246 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 1335307012247 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1335307012248 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 1335307012249 Subunit I/III interface [polypeptide binding]; other site 1335307012250 D-pathway; other site 1335307012251 Subunit I/VIIc interface [polypeptide binding]; other site 1335307012252 Subunit I/IV interface [polypeptide binding]; other site 1335307012253 Subunit I/II interface [polypeptide binding]; other site 1335307012254 Low-spin heme (heme a) binding site [chemical binding]; other site 1335307012255 Subunit I/VIIa interface [polypeptide binding]; other site 1335307012256 Subunit I/VIa interface [polypeptide binding]; other site 1335307012257 Dimer interface; other site 1335307012258 Putative water exit pathway; other site 1335307012259 Binuclear center (heme a3/CuB) [ion binding]; other site 1335307012260 K-pathway; other site 1335307012261 Subunit I/Vb interface [polypeptide binding]; other site 1335307012262 Putative proton exit pathway; other site 1335307012263 Subunit I/VIb interface; other site 1335307012264 Subunit I/VIc interface [polypeptide binding]; other site 1335307012265 Electron transfer pathway; other site 1335307012266 Subunit I/VIIIb interface [polypeptide binding]; other site 1335307012267 Subunit I/VIIb interface [polypeptide binding]; other site 1335307012268 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1335307012269 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 1335307012270 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1335307012271 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1335307012272 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1335307012273 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1335307012274 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1335307012275 ligand binding site [chemical binding]; other site 1335307012276 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 1335307012277 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1335307012278 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 1335307012279 S-adenosylmethionine binding site [chemical binding]; other site 1335307012280 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1335307012281 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1335307012282 active site 1335307012283 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1335307012284 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 1335307012285 putative ADP-ribose binding site [chemical binding]; other site 1335307012286 putative active site [active] 1335307012287 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1335307012288 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1335307012289 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1335307012290 preprotein translocase subunit SecB; Validated; Region: PRK05751 1335307012291 SecA binding site; other site 1335307012292 Preprotein binding site; other site 1335307012293 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 1335307012294 GSH binding site [chemical binding]; other site 1335307012295 catalytic residues [active] 1335307012296 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 1335307012297 active site residue [active] 1335307012298 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 1335307012299 catalytic core [active] 1335307012300 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 1335307012301 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1335307012302 C-terminal peptidase (prc); Region: prc; TIGR00225 1335307012303 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 1335307012304 protein binding site [polypeptide binding]; other site 1335307012305 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1335307012306 Catalytic dyad [active] 1335307012307 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1335307012308 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 1335307012309 ATP binding site [chemical binding]; other site 1335307012310 substrate interface [chemical binding]; other site 1335307012311 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1335307012312 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1335307012313 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1335307012314 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1335307012315 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 1335307012316 dimerization domain swap beta strand [polypeptide binding]; other site 1335307012317 regulatory protein interface [polypeptide binding]; other site 1335307012318 active site 1335307012319 regulatory phosphorylation site [posttranslational modification]; other site 1335307012320 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 1335307012321 active pocket/dimerization site; other site 1335307012322 active site 1335307012323 phosphorylation site [posttranslational modification] 1335307012324 glutathione synthetase; Provisional; Region: PRK05246 1335307012325 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1335307012326 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1335307012327 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 1335307012328 Glutamate-cysteine ligase; Region: GshA; pfam08886 1335307012329 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1335307012330 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1335307012331 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1335307012332 Membrane fusogenic activity; Region: BMFP; pfam04380 1335307012333 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1335307012334 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1335307012335 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1335307012336 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1335307012337 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1335307012338 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1335307012339 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1335307012340 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 1335307012341 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1335307012342 catalytic residues [active] 1335307012343 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1335307012344 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 1335307012345 active site 1335307012346 phosphorylation site [posttranslational modification] 1335307012347 intermolecular recognition site; other site 1335307012348 dimerization interface [polypeptide binding]; other site 1335307012349 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 1335307012350 Walker A motif; other site 1335307012351 ATP binding site [chemical binding]; other site 1335307012352 Walker B motif; other site 1335307012353 arginine finger; other site 1335307012354 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1335307012355 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1335307012356 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 1335307012357 dimer interface [polypeptide binding]; other site 1335307012358 phosphorylation site [posttranslational modification] 1335307012359 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 1335307012360 ATP binding site [chemical binding]; other site 1335307012361 Mg2+ binding site [ion binding]; other site 1335307012362 G-X-G motif; other site 1335307012363 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1335307012364 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1335307012365 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1335307012366 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1335307012367 Na binding site [ion binding]; other site 1335307012368 Protein of unknown function, DUF485; Region: DUF485; pfam04341 1335307012369 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1335307012370 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1335307012371 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 1335307012372 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1335307012373 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1335307012374 active site 1335307012375 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 1335307012376 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1335307012377 active site 1335307012378 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1335307012379 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 1335307012380 substrate binding site [chemical binding]; other site 1335307012381 oxyanion hole (OAH) forming residues; other site 1335307012382 trimer interface [polypeptide binding]; other site 1335307012383 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1335307012384 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1335307012385 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1335307012386 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307012387 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307012388 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 1335307012389 putative effector binding pocket; other site 1335307012390 dimerization interface [polypeptide binding]; other site 1335307012391 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1335307012392 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1335307012393 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1335307012394 lipoyl synthase; Provisional; Region: PRK05481 1335307012395 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 1335307012396 FeS/SAM binding site; other site 1335307012397 lipoate-protein ligase B; Provisional; Region: PRK14343 1335307012398 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 1335307012399 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1335307012400 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307012401 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 1335307012402 dimerization interface [polypeptide binding]; other site 1335307012403 substrate binding pocket [chemical binding]; other site 1335307012404 hypothetical protein; Provisional; Region: PRK02047 1335307012405 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 1335307012406 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1335307012407 homodimer interface [polypeptide binding]; other site 1335307012408 substrate-cofactor binding pocket; other site 1335307012409 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307012410 catalytic residue [active] 1335307012411 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1335307012412 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1335307012413 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1335307012414 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1335307012415 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 1335307012416 dimer interface [polypeptide binding]; other site 1335307012417 [2Fe-2S] cluster binding site [ion binding]; other site 1335307012418 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1335307012419 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1335307012420 mce related protein; Region: MCE; pfam02470 1335307012421 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1335307012422 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1335307012423 Walker A/P-loop; other site 1335307012424 ATP binding site [chemical binding]; other site 1335307012425 Q-loop/lid; other site 1335307012426 ABC transporter signature motif; other site 1335307012427 Walker B; other site 1335307012428 D-loop; other site 1335307012429 H-loop/switch region; other site 1335307012430 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1335307012431 Permease; Region: Permease; pfam02405 1335307012432 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 1335307012433 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1335307012434 active site 1335307012435 metal binding site [ion binding]; metal-binding site 1335307012436 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1335307012437 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1335307012438 Sel1 repeat; Region: Sel1; cl02723 1335307012439 Sel1-like repeats; Region: SEL1; smart00671 1335307012440 biotin--protein ligase; Provisional; Region: PRK06955 1335307012441 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1335307012442 pantothenate kinase; Reviewed; Region: PRK13328 1335307012443 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1335307012444 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1335307012445 active site 1335307012446 HIGH motif; other site 1335307012447 nucleotide binding site [chemical binding]; other site 1335307012448 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1335307012449 dinuclear metal binding motif [ion binding]; other site 1335307012450 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1335307012451 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1335307012452 active site 1335307012453 nucleophile elbow; other site 1335307012454 enoyl-CoA hydratase; Provisional; Region: PRK07657 1335307012455 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 1335307012456 substrate binding site [chemical binding]; other site 1335307012457 oxyanion hole (OAH) forming residues; other site 1335307012458 trimer interface [polypeptide binding]; other site 1335307012459 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 1335307012460 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 1335307012461 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1335307012462 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1335307012463 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1335307012464 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1335307012465 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 1335307012466 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1335307012467 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1335307012468 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 1335307012469 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 1335307012470 substrate binding pocket [chemical binding]; other site 1335307012471 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 1335307012472 B12 binding site [chemical binding]; other site 1335307012473 cobalt ligand [ion binding]; other site 1335307012474 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1335307012475 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 1335307012476 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 1335307012477 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1335307012478 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1335307012479 active site 1335307012480 HIGH motif; other site 1335307012481 KMSK motif region; other site 1335307012482 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1335307012483 tRNA binding surface [nucleotide binding]; other site 1335307012484 anticodon binding site; other site 1335307012485 Sporulation related domain; Region: SPOR; pfam05036 1335307012486 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 1335307012487 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1335307012488 catalytic residues [active] 1335307012489 hinge region; other site 1335307012490 alpha helical domain; other site 1335307012491 short chain dehydrogenase; Provisional; Region: PRK07024 1335307012492 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307012493 NAD(P) binding site [chemical binding]; other site 1335307012494 active site 1335307012495 short chain dehydrogenase; Validated; Region: PRK08264 1335307012496 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307012497 NAD(P) binding site [chemical binding]; other site 1335307012498 active site 1335307012499 MarR family; Region: MarR_2; cl17246 1335307012500 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1335307012501 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1335307012502 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1335307012503 peptide binding site [polypeptide binding]; other site 1335307012504 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1335307012505 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307012506 Walker A/P-loop; other site 1335307012507 ATP binding site [chemical binding]; other site 1335307012508 Q-loop/lid; other site 1335307012509 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1335307012510 ABC transporter signature motif; other site 1335307012511 Walker B; other site 1335307012512 D-loop; other site 1335307012513 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1335307012514 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1335307012515 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 1335307012516 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 1335307012517 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_cladeA; cd00883 1335307012518 active site clefts [active] 1335307012519 zinc binding site [ion binding]; other site 1335307012520 dimer interface [polypeptide binding]; other site 1335307012521 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1335307012522 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 1335307012523 dimer interface [polypeptide binding]; other site 1335307012524 active site 1335307012525 short chain dehydrogenase; Provisional; Region: PRK06953 1335307012526 NAD(P) binding site [chemical binding]; other site 1335307012527 active site 1335307012528 hypothetical protein; Provisional; Region: PRK01842 1335307012529 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1335307012530 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1335307012531 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 1335307012532 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 1335307012533 inhibitor-cofactor binding pocket; inhibition site 1335307012534 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307012535 catalytic residue [active] 1335307012536 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 1335307012537 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1335307012538 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1335307012539 catalytic residue [active] 1335307012540 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1335307012541 AAA domain; Region: AAA_26; pfam13500 1335307012542 biotin synthase; Region: bioB; TIGR00433 1335307012543 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 1335307012544 FeS/SAM binding site; other site 1335307012545 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1335307012546 CutC family; Region: CutC; cl01218 1335307012547 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 1335307012548 Alkaline phosphatase homologues; Region: alkPPc; smart00098 1335307012549 active site 1335307012550 dimer interface [polypeptide binding]; other site 1335307012551 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 1335307012552 dimer interface [polypeptide binding]; other site 1335307012553 Alkaline phosphatase homologues; Region: alkPPc; smart00098 1335307012554 active site 1335307012555 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 1335307012556 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1335307012557 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 1335307012558 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 1335307012559 dimer interface [polypeptide binding]; other site 1335307012560 PYR/PP interface [polypeptide binding]; other site 1335307012561 TPP binding site [chemical binding]; other site 1335307012562 substrate binding site [chemical binding]; other site 1335307012563 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 1335307012564 TPP-binding site [chemical binding]; other site 1335307012565 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1335307012566 Inward rectifier potassium channel; Region: IRK; pfam01007 1335307012567 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 1335307012568 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 1335307012569 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 1335307012570 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1335307012571 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 1335307012572 Inclusion body protein; Region: PixA; pfam12306 1335307012573 Inclusion body protein; Region: PixA; pfam12306 1335307012574 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1335307012575 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1335307012576 dimer interface [polypeptide binding]; other site 1335307012577 active site 1335307012578 catalytic residue [active] 1335307012579 Glyoxal oxidase N-terminus; Region: Glyoxal_oxid_N; pfam07250 1335307012580 Kelch motif; Region: Kelch_6; pfam13964 1335307012581 C-terminal Early set domain associated with the catalytic domain of galactose oxidase; Region: E_set_GO_C; cd02851 1335307012582 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1335307012583 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 1335307012584 Cu(I) binding site [ion binding]; other site 1335307012585 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1335307012586 Predicted membrane protein [Function unknown]; Region: COG4541 1335307012587 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1335307012588 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1335307012589 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 1335307012590 putative DNA binding site [nucleotide binding]; other site 1335307012591 putative Zn2+ binding site [ion binding]; other site 1335307012592 AsnC family; Region: AsnC_trans_reg; pfam01037 1335307012593 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 1335307012594 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1335307012595 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1335307012596 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1335307012597 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_20; cd04679 1335307012598 nudix motif; other site 1335307012599 Serine hydrolase; Region: Ser_hydrolase; pfam06821 1335307012600 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1335307012601 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_18; cd08357 1335307012602 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1335307012603 putative metal binding site [ion binding]; other site 1335307012604 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 1335307012605 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1335307012606 putative ligand binding site [chemical binding]; other site 1335307012607 NAD binding site [chemical binding]; other site 1335307012608 dimerization interface [polypeptide binding]; other site 1335307012609 catalytic site [active] 1335307012610 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1335307012611 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1335307012612 active site 1335307012613 catalytic residues [active] 1335307012614 metal binding site [ion binding]; metal-binding site 1335307012615 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 1335307012616 putative deacylase active site [active] 1335307012617 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 1335307012618 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1335307012619 EamA-like transporter family; Region: EamA; pfam00892 1335307012620 EamA-like transporter family; Region: EamA; pfam00892 1335307012621 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1335307012622 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 1335307012623 dimerization interface [polypeptide binding]; other site 1335307012624 putative DNA binding site [nucleotide binding]; other site 1335307012625 putative Zn2+ binding site [ion binding]; other site 1335307012626 AsnC family; Region: AsnC_trans_reg; pfam01037 1335307012627 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1335307012628 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1335307012629 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 1335307012630 FMN binding site [chemical binding]; other site 1335307012631 substrate binding site [chemical binding]; other site 1335307012632 putative catalytic residue [active] 1335307012633 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307012634 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307012635 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 1335307012636 putative effector binding pocket; other site 1335307012637 dimerization interface [polypeptide binding]; other site 1335307012638 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307012639 trimer interface [polypeptide binding]; other site 1335307012640 eyelet of channel; other site 1335307012641 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307012642 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1335307012643 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1335307012644 Integrase core domain; Region: rve; pfam00665 1335307012645 Integrase core domain; Region: rve_3; pfam13683 1335307012646 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1335307012647 Transposase; Region: HTH_Tnp_1; pfam01527 1335307012648 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1335307012649 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1335307012650 dimer interface [polypeptide binding]; other site 1335307012651 putative CheW interface [polypeptide binding]; other site 1335307012652 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1335307012653 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1335307012654 DNA binding site [nucleotide binding] 1335307012655 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1335307012656 ligand binding site [chemical binding]; other site 1335307012657 dimerization interface [polypeptide binding]; other site 1335307012658 dimerization interface [polypeptide binding]; other site 1335307012659 N-acylglucosamine 2-epimerase (GlcNAc 2-epimerase); Region: GlcNAc_2-epim; pfam07221 1335307012660 putative active cleft [active] 1335307012661 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 1335307012662 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1335307012663 putative substrate binding site [chemical binding]; other site 1335307012664 putative ATP binding site [chemical binding]; other site 1335307012665 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 1335307012666 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1335307012667 short chain dehydrogenase; Provisional; Region: PRK09134 1335307012668 Dihydroneopterin aldolase; Region: FolB; smart00905 1335307012669 active site 1335307012670 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1335307012671 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 1335307012672 Ligand Binding Site [chemical binding]; other site 1335307012673 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 1335307012674 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1335307012675 Substrate binding site; other site 1335307012676 Mg++ binding site; other site 1335307012677 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 1335307012678 active site 1335307012679 substrate binding site [chemical binding]; other site 1335307012680 CoA binding site [chemical binding]; other site 1335307012681 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1335307012682 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 1335307012683 glutaminase active site [active] 1335307012684 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 1335307012685 dimer interface [polypeptide binding]; other site 1335307012686 active site 1335307012687 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 1335307012688 dimer interface [polypeptide binding]; other site 1335307012689 active site 1335307012690 Avidin family; Region: Avidin; pfam01382 1335307012691 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1335307012692 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1335307012693 HlyD family secretion protein; Region: HlyD_2; pfam12700 1335307012694 HlyD family secretion protein; Region: HlyD_3; pfam13437 1335307012695 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1335307012696 Repair protein; Region: Repair_PSII; pfam04536 1335307012697 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 1335307012698 Repair protein; Region: Repair_PSII; pfam04536 1335307012699 LemA family; Region: LemA; pfam04011 1335307012700 YHS domain; Region: YHS; pfam04945 1335307012701 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1335307012702 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1335307012703 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1335307012704 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 1335307012705 argininosuccinate synthase; Validated; Region: PRK05370 1335307012706 argininosuccinate synthase; Provisional; Region: PRK13820 1335307012707 glutathione reductase; Validated; Region: PRK06116 1335307012708 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1335307012709 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1335307012710 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1335307012711 Transposase domain (DUF772); Region: DUF772; pfam05598 1335307012712 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1335307012713 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1335307012714 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1335307012715 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1335307012716 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 1335307012717 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 1335307012718 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 1335307012719 ligand binding site; other site 1335307012720 putative membrane protein; Region: HpnL; TIGR03476 1335307012721 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307012722 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307012723 trimer interface [polypeptide binding]; other site 1335307012724 eyelet of channel; other site 1335307012725 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1335307012726 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1335307012727 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1335307012728 PhnA protein; Region: PhnA; pfam03831 1335307012729 Chromate transporter; Region: Chromate_transp; pfam02417 1335307012730 Chromate transporter; Region: Chromate_transp; pfam02417 1335307012731 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307012732 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1335307012733 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 1335307012734 dimerization interface [polypeptide binding]; other site 1335307012735 substrate binding pocket [chemical binding]; other site 1335307012736 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 1335307012737 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 1335307012738 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1335307012739 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 1335307012740 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1335307012741 Flagellar regulator YcgR; Region: YcgR; pfam07317 1335307012742 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 1335307012743 PilZ domain; Region: PilZ; pfam07238 1335307012744 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12709 1335307012745 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 1335307012746 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1335307012747 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1335307012748 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1335307012749 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12697 1335307012750 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 1335307012751 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 1335307012752 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1335307012753 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1335307012754 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 1335307012755 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1335307012756 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1335307012757 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1335307012758 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1335307012759 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1335307012760 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1335307012761 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 1335307012762 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1335307012763 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1335307012764 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1335307012765 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1335307012766 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1335307012767 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12626 1335307012768 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1335307012769 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 1335307012770 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1335307012771 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 1335307012772 FlgN protein; Region: FlgN; pfam05130 1335307012773 Killing trait; Region: RebB; pfam11747 1335307012774 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1335307012775 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1335307012776 active site 1335307012777 NTP binding site [chemical binding]; other site 1335307012778 metal binding triad [ion binding]; metal-binding site 1335307012779 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1335307012780 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 1335307012781 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1335307012782 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 1335307012783 putative C-terminal domain interface [polypeptide binding]; other site 1335307012784 putative GSH binding site (G-site) [chemical binding]; other site 1335307012785 putative dimer interface [polypeptide binding]; other site 1335307012786 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 1335307012787 putative N-terminal domain interface [polypeptide binding]; other site 1335307012788 putative dimer interface [polypeptide binding]; other site 1335307012789 putative substrate binding pocket (H-site) [chemical binding]; other site 1335307012790 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 1335307012791 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1335307012792 putative NAD(P) binding site [chemical binding]; other site 1335307012793 active site 1335307012794 lytic murein transglycosylase; Provisional; Region: PRK11619 1335307012795 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 1335307012796 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1335307012797 catalytic residue [active] 1335307012798 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1335307012799 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1335307012800 MarR family; Region: MarR_2; cl17246 1335307012801 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 1335307012802 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1335307012803 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 1335307012804 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 1335307012805 putative active site [active] 1335307012806 Protein of unknown function (DUF969); Region: DUF969; pfam06149 1335307012807 Predicted membrane protein [Function unknown]; Region: COG3817 1335307012808 Protein of unknown function (DUF979); Region: DUF979; pfam06166 1335307012809 TraB family; Region: TraB; pfam01963 1335307012810 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1335307012811 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1335307012812 Walker A/P-loop; other site 1335307012813 ATP binding site [chemical binding]; other site 1335307012814 Q-loop/lid; other site 1335307012815 ABC transporter signature motif; other site 1335307012816 Walker B; other site 1335307012817 D-loop; other site 1335307012818 H-loop/switch region; other site 1335307012819 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1335307012820 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1335307012821 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1335307012822 Walker A/P-loop; other site 1335307012823 ATP binding site [chemical binding]; other site 1335307012824 Q-loop/lid; other site 1335307012825 ABC transporter signature motif; other site 1335307012826 Walker B; other site 1335307012827 D-loop; other site 1335307012828 H-loop/switch region; other site 1335307012829 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1335307012830 dipeptide transporter; Provisional; Region: PRK10913 1335307012831 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 1335307012832 dimer interface [polypeptide binding]; other site 1335307012833 conserved gate region; other site 1335307012834 putative PBP binding loops; other site 1335307012835 ABC-ATPase subunit interface; other site 1335307012836 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1335307012837 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 1335307012838 dimer interface [polypeptide binding]; other site 1335307012839 conserved gate region; other site 1335307012840 putative PBP binding loops; other site 1335307012841 ABC-ATPase subunit interface; other site 1335307012842 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1335307012843 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1335307012844 peptide binding site [polypeptide binding]; other site 1335307012845 citrate-proton symporter; Provisional; Region: PRK15075 1335307012846 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 1335307012847 putative substrate translocation pore; other site 1335307012848 High potential iron-sulfur protein; Region: HIPIP; pfam01355 1335307012849 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1335307012850 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1335307012851 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 1335307012852 Walker A motif; other site 1335307012853 ATP binding site [chemical binding]; other site 1335307012854 Walker B motif; other site 1335307012855 arginine finger; other site 1335307012856 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1335307012857 putative catalytic site [active] 1335307012858 putative phosphate binding site [ion binding]; other site 1335307012859 putative metal binding site [ion binding]; other site 1335307012860 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1335307012861 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1335307012862 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 1335307012863 FAD binding pocket [chemical binding]; other site 1335307012864 FAD binding motif [chemical binding]; other site 1335307012865 phosphate binding motif [ion binding]; other site 1335307012866 beta-alpha-beta structure motif; other site 1335307012867 NAD binding pocket [chemical binding]; other site 1335307012868 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1335307012869 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1335307012870 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 1335307012871 active site 1335307012872 phosphorylation site [posttranslational modification] 1335307012873 intermolecular recognition site; other site 1335307012874 dimerization interface [polypeptide binding]; other site 1335307012875 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 1335307012876 DNA binding residues [nucleotide binding] 1335307012877 dimerization interface [polypeptide binding]; other site 1335307012878 amino acid transporter; Region: 2A0306; TIGR00909 1335307012879 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1335307012880 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1335307012881 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1335307012882 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1335307012883 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 1335307012884 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1335307012885 flagellar protein FliS; Validated; Region: fliS; PRK05685 1335307012886 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 1335307012887 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1335307012888 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 1335307012889 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1335307012890 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1335307012891 FliG C-terminal domain; Region: FliG_C; pfam01706 1335307012892 flagellar assembly protein H; Validated; Region: fliH; PRK05687 1335307012893 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 1335307012894 Flagellar assembly protein FliH; Region: FliH; pfam02108 1335307012895 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 1335307012896 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 1335307012897 Walker A motif/ATP binding site; other site 1335307012898 Walker B motif; other site 1335307012899 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 1335307012900 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 1335307012901 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1335307012902 choline dehydrogenase; Validated; Region: PRK02106 1335307012903 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1335307012904 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 1335307012905 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1335307012906 active site 1335307012907 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 1335307012908 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 1335307012909 NAD(P) binding site [chemical binding]; other site 1335307012910 catalytic residues [active] 1335307012911 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 1335307012912 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1335307012913 serine/threonine protein kinase; Provisional; Region: PRK11768 1335307012914 EamA-like transporter family; Region: EamA; pfam00892 1335307012915 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 1335307012916 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1335307012917 active site 1335307012918 catalytic tetrad [active] 1335307012919 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 1335307012920 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1335307012921 Transposase domain (DUF772); Region: DUF772; pfam05598 1335307012922 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1335307012923 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1335307012924 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1335307012925 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1335307012926 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1335307012927 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1335307012928 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1335307012929 putative acyl-acceptor binding pocket; other site 1335307012930 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1335307012931 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1335307012932 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1335307012933 Protein of unknown function, DUF484; Region: DUF484; cl17449 1335307012934 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1335307012935 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 1335307012936 active site 1335307012937 DNA binding site [nucleotide binding] 1335307012938 Int/Topo IB signature motif; other site 1335307012939 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1335307012940 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 1335307012941 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1335307012942 putative RNA binding site [nucleotide binding]; other site 1335307012943 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 1335307012944 S-adenosylmethionine binding site [chemical binding]; other site 1335307012945 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1335307012946 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 1335307012947 P-loop, Walker A motif; other site 1335307012948 Base recognition motif; other site 1335307012949 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1335307012950 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1335307012951 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 1335307012952 active site 1335307012953 HslU subunit interaction site [polypeptide binding]; other site 1335307012954 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1335307012955 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 1335307012956 Walker A motif; other site 1335307012957 ATP binding site [chemical binding]; other site 1335307012958 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1335307012959 Walker B motif; other site 1335307012960 arginine finger; other site 1335307012961 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1335307012962 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 1335307012963 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 1335307012964 active site 1335307012965 phosphorylation site [posttranslational modification] 1335307012966 intermolecular recognition site; other site 1335307012967 dimerization interface [polypeptide binding]; other site 1335307012968 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1335307012969 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1335307012970 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 1335307012971 dimer interface [polypeptide binding]; other site 1335307012972 phosphorylation site [posttranslational modification] 1335307012973 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 1335307012974 ATP binding site [chemical binding]; other site 1335307012975 Mg2+ binding site [ion binding]; other site 1335307012976 G-X-G motif; other site 1335307012977 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 1335307012978 feedback inhibition sensing region; other site 1335307012979 homohexameric interface [polypeptide binding]; other site 1335307012980 nucleotide binding site [chemical binding]; other site 1335307012981 N-acetyl-L-glutamate binding site [chemical binding]; other site 1335307012982 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 1335307012983 division inhibitor protein; Provisional; Region: slmA; PRK09480 1335307012984 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1335307012985 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1335307012986 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 1335307012987 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 1335307012988 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1335307012989 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 1335307012990 putative substrate translocation pore; other site 1335307012991 Peptidase family M48; Region: Peptidase_M48; cl12018 1335307012992 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1335307012993 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307012994 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1335307012995 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1335307012996 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1335307012997 putative NAD(P) binding site [chemical binding]; other site 1335307012998 putative substrate binding site [chemical binding]; other site 1335307012999 catalytic Zn binding site [ion binding]; other site 1335307013000 structural Zn binding site [ion binding]; other site 1335307013001 dimer interface [polypeptide binding]; other site 1335307013002 Transposase domain (DUF772); Region: DUF772; pfam05598 1335307013003 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1335307013004 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1335307013005 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 1335307013006 putative active site [active] 1335307013007 putative catalytic site [active] 1335307013008 putative DNA binding site [nucleotide binding]; other site 1335307013009 putative phosphate binding site [ion binding]; other site 1335307013010 metal binding site A [ion binding]; metal-binding site 1335307013011 putative AP binding site [nucleotide binding]; other site 1335307013012 putative metal binding site B [ion binding]; other site 1335307013013 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1335307013014 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1335307013015 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1335307013016 GatB domain; Region: GatB_Yqey; smart00845 1335307013017 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1335307013018 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1335307013019 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1335307013020 rod shape-determining protein MreB; Provisional; Region: PRK13927 1335307013021 MreB and similar proteins; Region: MreB_like; cd10225 1335307013022 nucleotide binding site [chemical binding]; other site 1335307013023 Mg binding site [ion binding]; other site 1335307013024 putative protofilament interaction site [polypeptide binding]; other site 1335307013025 RodZ interaction site [polypeptide binding]; other site 1335307013026 rod shape-determining protein MreC; Provisional; Region: PRK13922 1335307013027 rod shape-determining protein MreC; Region: MreC; pfam04085 1335307013028 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 1335307013029 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1335307013030 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1335307013031 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1335307013032 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1335307013033 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1335307013034 Sel1-like repeats; Region: SEL1; smart00671 1335307013035 Sel1-like repeats; Region: SEL1; smart00671 1335307013036 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1335307013037 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1335307013038 active site 1335307013039 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1335307013040 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1335307013041 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 1335307013042 Ligand Binding Site [chemical binding]; other site 1335307013043 Response regulator receiver domain; Region: Response_reg; pfam00072 1335307013044 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 1335307013045 active site 1335307013046 phosphorylation site [posttranslational modification] 1335307013047 intermolecular recognition site; other site 1335307013048 dimerization interface [polypeptide binding]; other site 1335307013049 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1335307013050 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 1335307013051 dimerization interface [polypeptide binding]; other site 1335307013052 PAS domain; Region: PAS; smart00091 1335307013053 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1335307013054 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 1335307013055 dimer interface [polypeptide binding]; other site 1335307013056 phosphorylation site [posttranslational modification] 1335307013057 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 1335307013058 ATP binding site [chemical binding]; other site 1335307013059 Mg2+ binding site [ion binding]; other site 1335307013060 G-X-G motif; other site 1335307013061 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 1335307013062 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1335307013063 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 1335307013064 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 1335307013065 S-adenosylmethionine binding site [chemical binding]; other site 1335307013066 M48 family peptidase; Provisional; Region: PRK03001 1335307013067 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1335307013068 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1335307013069 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1335307013070 putative active site [active] 1335307013071 substrate binding site [chemical binding]; other site 1335307013072 putative cosubstrate binding site; other site 1335307013073 catalytic site [active] 1335307013074 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1335307013075 substrate binding site [chemical binding]; other site 1335307013076 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 1335307013077 active site 1335307013078 catalytic residues [active] 1335307013079 metal binding site [ion binding]; metal-binding site 1335307013080 DNA protecting protein DprA; Region: dprA; TIGR00732 1335307013081 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1335307013082 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 1335307013083 catalytic residues [active] 1335307013084 DNA topoisomerase III; Validated; Region: PRK08173 1335307013085 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1335307013086 active site 1335307013087 putative interdomain interaction site [polypeptide binding]; other site 1335307013088 putative metal-binding site [ion binding]; other site 1335307013089 putative nucleotide binding site [chemical binding]; other site 1335307013090 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 1335307013091 domain I; other site 1335307013092 DNA binding groove [nucleotide binding] 1335307013093 phosphate binding site [ion binding]; other site 1335307013094 domain II; other site 1335307013095 domain III; other site 1335307013096 nucleotide binding site [chemical binding]; other site 1335307013097 catalytic site [active] 1335307013098 domain IV; other site 1335307013099 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1335307013100 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1335307013101 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307013102 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307013103 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 1335307013104 putative effector binding pocket; other site 1335307013105 dimerization interface [polypeptide binding]; other site 1335307013106 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 1335307013107 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1335307013108 dimerization interface [polypeptide binding]; other site 1335307013109 NAD binding site [chemical binding]; other site 1335307013110 ligand binding site [chemical binding]; other site 1335307013111 catalytic site [active] 1335307013112 Patatin-like phospholipase; Region: Patatin; pfam01734 1335307013113 active site 1335307013114 nucleophile elbow; other site 1335307013115 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1335307013116 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 1335307013117 CoenzymeA binding site [chemical binding]; other site 1335307013118 subunit interaction site [polypeptide binding]; other site 1335307013119 PHB binding site; other site 1335307013120 SIR2-like domain; Region: SIR2_2; pfam13289 1335307013121 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 1335307013122 portal vertex protein; Provisional; Region: Q; PHA02536 1335307013123 Phage portal protein; Region: Phage_portal; pfam04860 1335307013124 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 1335307013125 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 1335307013126 putative active site; other site 1335307013127 catalytic triad [active] 1335307013128 putative dimer interface [polypeptide binding]; other site 1335307013129 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1335307013130 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 1335307013131 active site 1335307013132 Zn binding site [ion binding]; other site 1335307013133 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1335307013134 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1335307013135 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307013136 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307013137 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 1335307013138 putative effector binding pocket; other site 1335307013139 dimerization interface [polypeptide binding]; other site 1335307013140 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 1335307013141 dimer interface [polypeptide binding]; other site 1335307013142 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 1335307013143 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1335307013144 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1335307013145 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 1335307013146 DNA binding residues [nucleotide binding] 1335307013147 glutamate--cysteine ligase; Provisional; Region: PRK02107 1335307013148 AlkA N-terminal domain; Region: AlkA_N; pfam06029 1335307013149 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 1335307013150 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1335307013151 minor groove reading motif; other site 1335307013152 helix-hairpin-helix signature motif; other site 1335307013153 substrate binding pocket [chemical binding]; other site 1335307013154 active site 1335307013155 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 1335307013156 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1335307013157 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307013158 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307013159 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1335307013160 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 1335307013161 DNA binding site [nucleotide binding] 1335307013162 active site 1335307013163 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 1335307013164 dimer interface [polypeptide binding]; other site 1335307013165 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1335307013166 metal binding site [ion binding]; metal-binding site 1335307013167 YaeQ protein; Region: YaeQ; pfam07152 1335307013168 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 1335307013169 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1335307013170 transport protein sec23; Provisional; Region: PLN00162 1335307013171 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 1335307013172 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 1335307013173 integrase; Provisional; Region: PRK09692 1335307013174 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 1335307013175 active site 1335307013176 Int/Topo IB signature motif; other site 1335307013177 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1335307013178 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1335307013179 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1335307013180 G1 box; other site 1335307013181 GTP/Mg2+ binding site [chemical binding]; other site 1335307013182 Switch I region; other site 1335307013183 G2 box; other site 1335307013184 Switch II region; other site 1335307013185 G3 box; other site 1335307013186 G4 box; other site 1335307013187 G5 box; other site 1335307013188 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1335307013189 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 1335307013190 sequence-specific DNA binding site [nucleotide binding]; other site 1335307013191 salt bridge; other site 1335307013192 membrane protein insertase; Provisional; Region: PRK01318 1335307013193 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1335307013194 Ribonuclease P; Region: Ribonuclease_P; cl00457 1335307013195 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1335307013196 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1335307013197 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1335307013198 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 1335307013199 Walker A motif; other site 1335307013200 ATP binding site [chemical binding]; other site 1335307013201 Walker B motif; other site 1335307013202 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 1335307013203 arginine finger; other site 1335307013204 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 1335307013205 DnaA box-binding interface [nucleotide binding]; other site 1335307013206 DNA polymerase III subunit beta; Validated; Region: PRK05643 1335307013207 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 1335307013208 putative DNA binding surface [nucleotide binding]; other site 1335307013209 dimer interface [polypeptide binding]; other site 1335307013210 beta-clamp/clamp loader binding surface; other site 1335307013211 beta-clamp/translesion DNA polymerase binding surface; other site 1335307013212 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1335307013213 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 1335307013214 ATP binding site [chemical binding]; other site 1335307013215 Mg2+ binding site [ion binding]; other site 1335307013216 G-X-G motif; other site 1335307013217 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 1335307013218 anchoring element; other site 1335307013219 dimer interface [polypeptide binding]; other site 1335307013220 ATP binding site [chemical binding]; other site 1335307013221 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 1335307013222 active site 1335307013223 putative metal-binding site [ion binding]; other site 1335307013224 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1335307013225 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1335307013226 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 1335307013227 putative heme binding pocket [chemical binding]; other site 1335307013228 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1335307013229 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 1335307013230 DNA binding residues [nucleotide binding] 1335307013231 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1335307013232 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 1335307013233 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1335307013234 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1335307013235 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1335307013236 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 1335307013237 substrate binding site [chemical binding]; other site 1335307013238 oxyanion hole (OAH) forming residues; other site 1335307013239 trimer interface [polypeptide binding]; other site 1335307013240 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1335307013241 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1335307013242 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 1335307013243 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 1335307013244 dimer interface [polypeptide binding]; other site 1335307013245 active site 1335307013246 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1335307013247 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1335307013248 active site 1335307013249 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1335307013250 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1335307013251 conserved cys residue [active] 1335307013252 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 1335307013253 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 1335307013254 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1335307013255 putative di-iron ligands [ion binding]; other site 1335307013256 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 1335307013257 Predicted membrane protein [Function unknown]; Region: COG4709 1335307013258 Predicted transcriptional regulators [Transcription]; Region: COG1695 1335307013259 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1335307013260 choline dehydrogenase; Validated; Region: PRK02106 1335307013261 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1335307013262 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1335307013263 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1335307013264 classical (c) SDRs; Region: SDR_c; cd05233 1335307013265 NAD(P) binding site [chemical binding]; other site 1335307013266 active site 1335307013267 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 1335307013268 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 1335307013269 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1335307013270 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1335307013271 NAD(P) binding site [chemical binding]; other site 1335307013272 catalytic residues [active] 1335307013273 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1335307013274 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_7; cd06341 1335307013275 putative ligand binding site [chemical binding]; other site 1335307013276 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 1335307013277 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1335307013278 TM-ABC transporter signature motif; other site 1335307013279 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1335307013280 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 1335307013281 TM-ABC transporter signature motif; other site 1335307013282 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1335307013283 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307013284 Walker A/P-loop; other site 1335307013285 ATP binding site [chemical binding]; other site 1335307013286 Q-loop/lid; other site 1335307013287 ABC transporter signature motif; other site 1335307013288 Walker B; other site 1335307013289 D-loop; other site 1335307013290 H-loop/switch region; other site 1335307013291 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1335307013292 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1335307013293 Walker A/P-loop; other site 1335307013294 ATP binding site [chemical binding]; other site 1335307013295 Q-loop/lid; other site 1335307013296 ABC transporter signature motif; other site 1335307013297 Walker B; other site 1335307013298 D-loop; other site 1335307013299 H-loop/switch region; other site 1335307013300 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1335307013301 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307013302 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307013303 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307013304 trimer interface [polypeptide binding]; other site 1335307013305 eyelet of channel; other site 1335307013306 Restriction endonuclease [Defense mechanisms]; Region: COG3587 1335307013307 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 1335307013308 ATP binding site [chemical binding]; other site 1335307013309 putative Mg++ binding site [ion binding]; other site 1335307013310 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1335307013311 DNA methylase; Region: N6_N4_Mtase; pfam01555 1335307013312 DNA methylase; Region: N6_N4_Mtase; cl17433 1335307013313 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307013314 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307013315 trimer interface [polypeptide binding]; other site 1335307013316 eyelet of channel; other site 1335307013317 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1335307013318 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 1335307013319 active site 1335307013320 phosphorylation site [posttranslational modification] 1335307013321 intermolecular recognition site; other site 1335307013322 dimerization interface [polypeptide binding]; other site 1335307013323 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 1335307013324 DNA binding site [nucleotide binding] 1335307013325 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1335307013326 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1335307013327 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 1335307013328 dimer interface [polypeptide binding]; other site 1335307013329 phosphorylation site [posttranslational modification] 1335307013330 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 1335307013331 ATP binding site [chemical binding]; other site 1335307013332 Mg2+ binding site [ion binding]; other site 1335307013333 G-X-G motif; other site 1335307013334 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1335307013335 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 1335307013336 dimer interface [polypeptide binding]; other site 1335307013337 conserved gate region; other site 1335307013338 putative PBP binding loops; other site 1335307013339 ABC-ATPase subunit interface; other site 1335307013340 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1335307013341 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1335307013342 Walker A/P-loop; other site 1335307013343 ATP binding site [chemical binding]; other site 1335307013344 Q-loop/lid; other site 1335307013345 ABC transporter signature motif; other site 1335307013346 Walker B; other site 1335307013347 D-loop; other site 1335307013348 H-loop/switch region; other site 1335307013349 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1335307013350 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 1335307013351 membrane-bound complex binding site; other site 1335307013352 hinge residues; other site 1335307013353 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 1335307013354 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1335307013355 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 1335307013356 S-adenosylmethionine binding site [chemical binding]; other site 1335307013357 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 1335307013358 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1335307013359 DNA binding residues [nucleotide binding] 1335307013360 putative dimer interface [polypeptide binding]; other site 1335307013361 putative metal binding residues [ion binding]; other site 1335307013362 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1335307013363 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1335307013364 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1335307013365 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 1335307013366 flagellar motor switch protein; Validated; Region: fliN; PRK05698 1335307013367 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1335307013368 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1335307013369 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1335307013370 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 1335307013371 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07718 1335307013372 LrgB-like family; Region: LrgB; cl00596 1335307013373 LrgA family; Region: LrgA; pfam03788 1335307013374 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307013375 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307013376 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 1335307013377 putative dimerization interface [polypeptide binding]; other site 1335307013378 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1335307013379 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 1335307013380 putative substrate translocation pore; other site 1335307013381 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 1335307013382 MarR family; Region: MarR_2; cl17246 1335307013383 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1335307013384 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1335307013385 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 1335307013386 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 1335307013387 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 1335307013388 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 1335307013389 GspL periplasmic domain; Region: GspL_C; pfam12693 1335307013390 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 1335307013391 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 1335307013392 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 1335307013393 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 1335307013394 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1335307013395 Type II transport protein GspH; Region: GspH; pfam12019 1335307013396 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1335307013397 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1335307013398 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1335307013399 type II secretion system protein F; Region: GspF; TIGR02120 1335307013400 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1335307013401 Ceramidase; Region: Ceramidase; pfam05875 1335307013402 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1335307013403 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1335307013404 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1335307013405 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 1335307013406 Walker A motif; other site 1335307013407 ATP binding site [chemical binding]; other site 1335307013408 Walker B motif; other site 1335307013409 type II secretion system protein D; Region: type_II_gspD; TIGR02517 1335307013410 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1335307013411 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1335307013412 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1335307013413 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 1335307013414 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1335307013415 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1335307013416 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 1335307013417 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1335307013418 catalytic residue [active] 1335307013419 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1335307013420 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1335307013421 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1335307013422 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 1335307013423 IHF dimer interface [polypeptide binding]; other site 1335307013424 IHF - DNA interface [nucleotide binding]; other site 1335307013425 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1335307013426 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1335307013427 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1335307013428 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 1335307013429 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 1335307013430 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1335307013431 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 1335307013432 putative DNA binding site [nucleotide binding]; other site 1335307013433 putative Zn2+ binding site [ion binding]; other site 1335307013434 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1335307013435 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1335307013436 catalytic triad [active] 1335307013437 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1335307013438 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 1335307013439 active site 1335307013440 FMN binding site [chemical binding]; other site 1335307013441 substrate binding site [chemical binding]; other site 1335307013442 homotetramer interface [polypeptide binding]; other site 1335307013443 catalytic residue [active] 1335307013444 Proteins containing SET domain [General function prediction only]; Region: COG2940 1335307013445 SET domain; Region: SET; pfam00856 1335307013446 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1335307013447 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1335307013448 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 1335307013449 dimer interface [polypeptide binding]; other site 1335307013450 phosphorylation site [posttranslational modification] 1335307013451 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 1335307013452 ATP binding site [chemical binding]; other site 1335307013453 Mg2+ binding site [ion binding]; other site 1335307013454 G-X-G motif; other site 1335307013455 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1335307013456 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 1335307013457 active site 1335307013458 phosphorylation site [posttranslational modification] 1335307013459 intermolecular recognition site; other site 1335307013460 dimerization interface [polypeptide binding]; other site 1335307013461 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 1335307013462 DNA binding site [nucleotide binding] 1335307013463 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 1335307013464 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 1335307013465 aromatic arch; other site 1335307013466 DCoH dimer interaction site [polypeptide binding]; other site 1335307013467 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1335307013468 DCoH tetramer interaction site [polypeptide binding]; other site 1335307013469 substrate binding site [chemical binding]; other site 1335307013470 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 1335307013471 cofactor binding site; other site 1335307013472 metal binding site [ion binding]; metal-binding site 1335307013473 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1335307013474 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1335307013475 putative DNA binding site [nucleotide binding]; other site 1335307013476 putative Zn2+ binding site [ion binding]; other site 1335307013477 AsnC family; Region: AsnC_trans_reg; pfam01037 1335307013478 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 1335307013479 putative active site [active] 1335307013480 putative metal binding residues [ion binding]; other site 1335307013481 signature motif; other site 1335307013482 putative triphosphate binding site [ion binding]; other site 1335307013483 dimer interface [polypeptide binding]; other site 1335307013484 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307013485 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307013486 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 1335307013487 dimerization interface [polypeptide binding]; other site 1335307013488 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1335307013489 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1335307013490 tetrameric interface [polypeptide binding]; other site 1335307013491 NAD binding site [chemical binding]; other site 1335307013492 catalytic residues [active] 1335307013493 choline dehydrogenase; Validated; Region: PRK02106 1335307013494 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1335307013495 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1335307013496 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1335307013497 Walker A/P-loop; other site 1335307013498 ATP binding site [chemical binding]; other site 1335307013499 Q-loop/lid; other site 1335307013500 ABC transporter signature motif; other site 1335307013501 Walker B; other site 1335307013502 D-loop; other site 1335307013503 H-loop/switch region; other site 1335307013504 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1335307013505 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1335307013506 Walker A/P-loop; other site 1335307013507 ATP binding site [chemical binding]; other site 1335307013508 Q-loop/lid; other site 1335307013509 ABC transporter signature motif; other site 1335307013510 Walker B; other site 1335307013511 D-loop; other site 1335307013512 H-loop/switch region; other site 1335307013513 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1335307013514 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 1335307013515 putative ligand binding site [chemical binding]; other site 1335307013516 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1335307013517 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 1335307013518 TM-ABC transporter signature motif; other site 1335307013519 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1335307013520 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 1335307013521 TM-ABC transporter signature motif; other site 1335307013522 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1335307013523 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1335307013524 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 1335307013525 putative ligand binding site [chemical binding]; other site 1335307013526 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 1335307013527 TM-ABC transporter signature motif; other site 1335307013528 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1335307013529 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 1335307013530 TM-ABC transporter signature motif; other site 1335307013531 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1335307013532 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1335307013533 Walker A/P-loop; other site 1335307013534 ATP binding site [chemical binding]; other site 1335307013535 Q-loop/lid; other site 1335307013536 ABC transporter signature motif; other site 1335307013537 Walker B; other site 1335307013538 D-loop; other site 1335307013539 H-loop/switch region; other site 1335307013540 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1335307013541 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1335307013542 Walker A/P-loop; other site 1335307013543 ATP binding site [chemical binding]; other site 1335307013544 Q-loop/lid; other site 1335307013545 ABC transporter signature motif; other site 1335307013546 Walker B; other site 1335307013547 D-loop; other site 1335307013548 H-loop/switch region; other site 1335307013549 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1335307013550 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 1335307013551 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1335307013552 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1335307013553 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1335307013554 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1335307013555 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1335307013556 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 1335307013557 P-loop; other site 1335307013558 Magnesium ion binding site [ion binding]; other site 1335307013559 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 1335307013560 Magnesium ion binding site [ion binding]; other site 1335307013561 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1335307013562 ParB-like nuclease domain; Region: ParBc; pfam02195 1335307013563 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 1335307013564 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1335307013565 transmembrane helices; other site 1335307013566 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1335307013567 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1335307013568 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1335307013569 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1335307013570 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1335307013571 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1335307013572 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1335307013573 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1335307013574 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1335307013575 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 1335307013576 beta subunit interaction interface [polypeptide binding]; other site 1335307013577 Walker A motif; other site 1335307013578 ATP binding site [chemical binding]; other site 1335307013579 Walker B motif; other site 1335307013580 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1335307013581 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1335307013582 core domain interface [polypeptide binding]; other site 1335307013583 delta subunit interface [polypeptide binding]; other site 1335307013584 epsilon subunit interface [polypeptide binding]; other site 1335307013585 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1335307013586 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1335307013587 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 1335307013588 alpha subunit interaction interface [polypeptide binding]; other site 1335307013589 Walker A motif; other site 1335307013590 ATP binding site [chemical binding]; other site 1335307013591 Walker B motif; other site 1335307013592 inhibitor binding site; inhibition site 1335307013593 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1335307013594 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1335307013595 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1335307013596 gamma subunit interface [polypeptide binding]; other site 1335307013597 epsilon subunit interface [polypeptide binding]; other site 1335307013598 LBP interface [polypeptide binding]; other site 1335307013599 Transposase domain (DUF772); Region: DUF772; pfam05598 1335307013600 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1335307013601 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1335307013602 AMP-binding domain protein; Validated; Region: PRK08315 1335307013603 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1335307013604 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1335307013605 acyl-activating enzyme (AAE) consensus motif; other site 1335307013606 putative AMP binding site [chemical binding]; other site 1335307013607 putative active site [active] 1335307013608 putative CoA binding site [chemical binding]; other site 1335307013609 CoA binding domain; Region: CoA_binding; cl17356 1335307013610 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 1335307013611 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1335307013612 substrate binding pocket [chemical binding]; other site 1335307013613 membrane-bound complex binding site; other site 1335307013614 hinge residues; other site 1335307013615 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1335307013616 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 1335307013617 substrate binding site [chemical binding]; other site 1335307013618 active site 1335307013619 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 1335307013620 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 1335307013621 ATP binding site [chemical binding]; other site 1335307013622 putative Mg++ binding site [ion binding]; other site 1335307013623 nucleotide binding region [chemical binding]; other site 1335307013624 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1335307013625 ATP-binding site [chemical binding]; other site 1335307013626 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1335307013627 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 1335307013628 Predicted transcriptional regulator [Transcription]; Region: COG3905 1335307013629 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1335307013630 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1335307013631 Glutamate binding site [chemical binding]; other site 1335307013632 NAD binding site [chemical binding]; other site 1335307013633 catalytic residues [active] 1335307013634 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1335307013635 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1335307013636 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1335307013637 dimerization interface [polypeptide binding]; other site 1335307013638 ligand binding site [chemical binding]; other site 1335307013639 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1335307013640 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1335307013641 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1335307013642 acyl-activating enzyme (AAE) consensus motif; other site 1335307013643 acyl-activating enzyme (AAE) consensus motif; other site 1335307013644 putative AMP binding site [chemical binding]; other site 1335307013645 putative active site [active] 1335307013646 putative CoA binding site [chemical binding]; other site 1335307013647 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 1335307013648 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1335307013649 active site 1335307013650 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1335307013651 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1335307013652 putative aminotransferase; Provisional; Region: PRK12414 1335307013653 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 1335307013654 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307013655 homodimer interface [polypeptide binding]; other site 1335307013656 catalytic residue [active] 1335307013657 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1335307013658 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 1335307013659 substrate binding pocket [chemical binding]; other site 1335307013660 membrane-bound complex binding site; other site 1335307013661 hinge residues; other site 1335307013662 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 1335307013663 Predicted transcriptional regulators [Transcription]; Region: COG1695 1335307013664 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1335307013665 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1335307013666 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 1335307013667 DNA binding residues [nucleotide binding] 1335307013668 dimer interface [polypeptide binding]; other site 1335307013669 putative metal binding site [ion binding]; other site 1335307013670 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1335307013671 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 1335307013672 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1335307013673 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1335307013674 Double zinc ribbon; Region: DZR; pfam12773 1335307013675 Conserved TM helix; Region: TM_helix; pfam05552 1335307013676 Conserved TM helix; Region: TM_helix; pfam05552 1335307013677 Conserved TM helix; Region: TM_helix; pfam05552 1335307013678 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 1335307013679 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1335307013680 ethanolamine permease; Region: 2A0305; TIGR00908 1335307013681 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 1335307013682 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 1335307013683 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 1335307013684 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 1335307013685 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1335307013686 NAD(P) binding site [chemical binding]; other site 1335307013687 catalytic residues [active] 1335307013688 Helix-turn-helix domain; Region: HTH_18; pfam12833 1335307013689 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 1335307013690 thiamine pyrophosphate protein; Validated; Region: PRK08199 1335307013691 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1335307013692 PYR/PP interface [polypeptide binding]; other site 1335307013693 dimer interface [polypeptide binding]; other site 1335307013694 TPP binding site [chemical binding]; other site 1335307013695 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1335307013696 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 1335307013697 TPP-binding site [chemical binding]; other site 1335307013698 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1335307013699 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1335307013700 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1335307013701 Alginate lyase; Region: Alginate_lyase; pfam05426 1335307013702 glycine dehydrogenase; Provisional; Region: PRK05367 1335307013703 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 1335307013704 tetramer interface [polypeptide binding]; other site 1335307013705 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307013706 catalytic residue [active] 1335307013707 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 1335307013708 tetramer interface [polypeptide binding]; other site 1335307013709 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307013710 catalytic residue [active] 1335307013711 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 1335307013712 lipoyl attachment site [posttranslational modification]; other site 1335307013713 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1335307013714 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1335307013715 putative oxidoreductase; Provisional; Region: PRK11579 1335307013716 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1335307013717 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1335307013718 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 1335307013719 oxyanion hole [active] 1335307013720 active site 1335307013721 catalytic triad [active] 1335307013722 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1335307013723 Part of AAA domain; Region: AAA_19; pfam13245 1335307013724 Family description; Region: UvrD_C_2; pfam13538 1335307013725 Cytochrome c; Region: Cytochrom_C; cl11414 1335307013726 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1335307013727 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 1335307013728 active site 1335307013729 DNA binding site [nucleotide binding] 1335307013730 Int/Topo IB signature motif; other site 1335307013731 PAAR motif; Region: PAAR_motif; pfam05488 1335307013732 VRR-NUC domain; Region: VRR_NUC; pfam08774 1335307013733 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 1335307013734 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 1335307013735 Chitin binding domain; Region: Chitin_bind_3; pfam03067 1335307013736 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1335307013737 FAD binding domain; Region: FAD_binding_4; pfam01565 1335307013738 Berberine and berberine like; Region: BBE; pfam08031 1335307013739 Cache domain; Region: Cache_1; pfam02743 1335307013740 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 1335307013741 dimerization interface [polypeptide binding]; other site 1335307013742 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1335307013743 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1335307013744 dimer interface [polypeptide binding]; other site 1335307013745 putative CheW interface [polypeptide binding]; other site 1335307013746 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1335307013747 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 1335307013748 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 1335307013749 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4380 1335307013750 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 1335307013751 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 1335307013752 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1335307013753 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1335307013754 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1335307013755 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 1335307013756 [2Fe-2S] cluster binding site [ion binding]; other site 1335307013757 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 1335307013758 alpha subunit interface [polypeptide binding]; other site 1335307013759 active site 1335307013760 substrate binding site [chemical binding]; other site 1335307013761 Fe binding site [ion binding]; other site 1335307013762 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 1335307013763 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 1335307013764 putative trimer interface [polypeptide binding]; other site 1335307013765 putative CoA binding site [chemical binding]; other site 1335307013766 short chain dehydrogenase; Provisional; Region: PRK06500 1335307013767 classical (c) SDRs; Region: SDR_c; cd05233 1335307013768 NAD(P) binding site [chemical binding]; other site 1335307013769 active site 1335307013770 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 1335307013771 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1335307013772 dimer interface [polypeptide binding]; other site 1335307013773 active site 1335307013774 CoA binding pocket [chemical binding]; other site 1335307013775 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 1335307013776 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1335307013777 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 1335307013778 dimer interface [polypeptide binding]; other site 1335307013779 active site 1335307013780 CoA binding pocket [chemical binding]; other site 1335307013781 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 1335307013782 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 1335307013783 inhibitor-cofactor binding pocket; inhibition site 1335307013784 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307013785 catalytic residue [active] 1335307013786 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1335307013787 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 1335307013788 TPR motif; other site 1335307013789 binding surface 1335307013790 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 1335307013791 binding surface 1335307013792 TPR motif; other site 1335307013793 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 1335307013794 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 1335307013795 TPR motif; other site 1335307013796 binding surface 1335307013797 flagellar capping protein; Reviewed; Region: fliD; PRK08032 1335307013798 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1335307013799 flagellin; Reviewed; Region: PRK08869 1335307013800 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1335307013801 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1335307013802 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1335307013803 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1335307013804 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 1335307013805 putative hydrolase; Provisional; Region: PRK10976 1335307013806 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 1335307013807 active site 1335307013808 motif I; other site 1335307013809 motif II; other site 1335307013810 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 1335307013811 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 1335307013812 amphipathic channel; other site 1335307013813 Asn-Pro-Ala signature motifs; other site 1335307013814 H-NS histone family; Region: Histone_HNS; pfam00816 1335307013815 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1335307013816 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1335307013817 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 1335307013818 putative ADP-binding pocket [chemical binding]; other site 1335307013819 transcriptional activator FlhD; Provisional; Region: PRK02909 1335307013820 transcriptional activator FlhC; Provisional; Region: PRK12722 1335307013821 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1335307013822 flagellar motor protein MotA; Validated; Region: PRK09110 1335307013823 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1335307013824 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 1335307013825 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1335307013826 ligand binding site [chemical binding]; other site 1335307013827 Response regulator receiver domain; Region: Response_reg; pfam00072 1335307013828 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 1335307013829 active site 1335307013830 phosphorylation site [posttranslational modification] 1335307013831 intermolecular recognition site; other site 1335307013832 dimerization interface [polypeptide binding]; other site 1335307013833 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1335307013834 putative binding surface; other site 1335307013835 active site 1335307013836 CheY binding; Region: CheY-binding; pfam09078 1335307013837 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1335307013838 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 1335307013839 ATP binding site [chemical binding]; other site 1335307013840 Mg2+ binding site [ion binding]; other site 1335307013841 G-X-G motif; other site 1335307013842 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 1335307013843 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 1335307013844 putative CheA interaction surface; other site 1335307013845 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 1335307013846 dimer interface [polypeptide binding]; other site 1335307013847 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 1335307013848 dimerization interface [polypeptide binding]; other site 1335307013849 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1335307013850 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1335307013851 dimer interface [polypeptide binding]; other site 1335307013852 putative CheW interface [polypeptide binding]; other site 1335307013853 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 1335307013854 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1335307013855 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 1335307013856 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13489 1335307013857 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1335307013858 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 1335307013859 active site 1335307013860 phosphorylation site [posttranslational modification] 1335307013861 intermolecular recognition site; other site 1335307013862 dimerization interface [polypeptide binding]; other site 1335307013863 CheB methylesterase; Region: CheB_methylest; pfam01339 1335307013864 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1335307013865 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 1335307013866 active site 1335307013867 phosphorylation site [posttranslational modification] 1335307013868 intermolecular recognition site; other site 1335307013869 dimerization interface [polypeptide binding]; other site 1335307013870 chemotaxis regulator CheZ; Provisional; Region: PRK11166 1335307013871 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 1335307013872 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 1335307013873 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1335307013874 dimer interface [polypeptide binding]; other site 1335307013875 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1335307013876 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1335307013877 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1335307013878 FHIPEP family; Region: FHIPEP; pfam00771 1335307013879 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14722 1335307013880 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 1335307013881 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 1335307013882 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1335307013883 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1335307013884 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1335307013885 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 1335307013886 DNA binding residues [nucleotide binding] 1335307013887 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1335307013888 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1335307013889 homotetramer interface [polypeptide binding]; other site 1335307013890 ligand binding site [chemical binding]; other site 1335307013891 catalytic site [active] 1335307013892 NAD binding site [chemical binding]; other site 1335307013893 Predicted membrane protein [Function unknown]; Region: COG1950 1335307013894 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 1335307013895 FAD binding site [chemical binding]; other site 1335307013896 amidase; Provisional; Region: PRK07869 1335307013897 Amidase; Region: Amidase; cl11426 1335307013898 Dienelactone hydrolase family; Region: DLH; pfam01738 1335307013899 Nitronate monooxygenase; Region: NMO; pfam03060 1335307013900 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 1335307013901 FMN binding site [chemical binding]; other site 1335307013902 substrate binding site [chemical binding]; other site 1335307013903 putative catalytic residue [active] 1335307013904 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1335307013905 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1335307013906 dimerization interface [polypeptide binding]; other site 1335307013907 ligand binding site [chemical binding]; other site 1335307013908 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 1335307013909 H-NS histone family; Region: Histone_HNS; pfam00816 1335307013910 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1335307013911 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1335307013912 Cation efflux family; Region: Cation_efflux; pfam01545 1335307013913 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1335307013914 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 1335307013915 putative DNA binding site [nucleotide binding]; other site 1335307013916 putative Zn2+ binding site [ion binding]; other site 1335307013917 AsnC family; Region: AsnC_trans_reg; pfam01037 1335307013918 active site 1335307013919 catalytic site [active] 1335307013920 substrate binding site [chemical binding]; other site 1335307013921 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1335307013922 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1335307013923 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1335307013924 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1335307013925 Predicted methyltransferases [General function prediction only]; Region: COG0313 1335307013926 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1335307013927 putative SAM binding site [chemical binding]; other site 1335307013928 putative homodimer interface [polypeptide binding]; other site 1335307013929 hypothetical protein; Provisional; Region: PRK14673 1335307013930 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 1335307013931 dimer interface [polypeptide binding]; other site 1335307013932 active site 1335307013933 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1335307013934 BON domain; Region: BON; pfam04972 1335307013935 BON domain; Region: BON; pfam04972 1335307013936 Cytochrome c; Region: Cytochrom_C; cl11414 1335307013937 TrfA protein; Region: TrfA; pfam07042 1335307013938 HTH-like domain; Region: HTH_21; pfam13276 1335307013939 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1335307013940 Integrase core domain; Region: rve; pfam00665 1335307013941 Integrase core domain; Region: rve_3; pfam13683 1335307013942 Transposase; Region: HTH_Tnp_1; pfam01527 1335307013943 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 1335307013944 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1335307013945 active site 1335307013946 DNA binding site [nucleotide binding] 1335307013947 Int/Topo IB signature motif; other site 1335307013948 Helix-turn-helix domain; Region: HTH_17; cl17695 1335307013949 PIN domain; Region: PIN_3; pfam13470 1335307013950 Prokaryotic E2 family C; Region: Prok-E2_C; pfam14459 1335307013951 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 1335307013952 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 1335307013953 Protein of Unknown function (DUF2604); Region: DUF2604; pfam10790 1335307013954 MarR family; Region: MarR_2; pfam12802 1335307013955 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1335307013956 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1335307013957 catalytic residues [active] 1335307013958 catalytic nucleophile [active] 1335307013959 Presynaptic Site I dimer interface [polypeptide binding]; other site 1335307013960 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1335307013961 Synaptic Flat tetramer interface [polypeptide binding]; other site 1335307013962 Synaptic Site I dimer interface [polypeptide binding]; other site 1335307013963 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1335307013964 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1335307013965 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 1335307013966 ATP binding site [chemical binding]; other site 1335307013967 putative Mg++ binding site [ion binding]; other site 1335307013968 T5orf172 domain; Region: T5orf172; pfam10544 1335307013969 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 1335307013970 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1335307013971 salt bridge; other site 1335307013972 non-specific DNA binding site [nucleotide binding]; other site 1335307013973 sequence-specific DNA binding site [nucleotide binding]; other site 1335307013974 Domain of unknown function (DUF955); Region: DUF955; cl01076 1335307013975 integrase; Provisional; Region: int; PHA02601 1335307013976 Rci recombinase, C-terminal catalytic domain. Rci enzymes are found in IncI1 incompatibility group plasmids such as R64. These recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain...; Region: INT_Rci; cd00796 1335307013977 catalytic residues [active] 1335307013978 Int/Topo IB signature motif; other site 1335307013979 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1335307013980 Spore germination protein; Region: Spore_permease; cl17796 1335307013981 Ub domain fused to Mut7-C; Region: Ub-Mut7C; pfam14451 1335307013982 Uncharacterized conserved protein [Function unknown]; Region: COG1656 1335307013983 Protein of unknown function DUF82; Region: DUF82; pfam01927 1335307013984 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1335307013985 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1335307013986 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1335307013987 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307013988 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307013989 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 1335307013990 dimerization interface [polypeptide binding]; other site 1335307013991 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1335307013992 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 1335307013993 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 1335307013994 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1335307013995 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1335307013996 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 1335307013997 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1335307013998 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1335307013999 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1335307014000 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1335307014001 substrate binding site [chemical binding]; other site 1335307014002 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1335307014003 active site 1335307014004 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 1335307014005 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1335307014006 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1335307014007 putative NAD(P) binding site [chemical binding]; other site 1335307014008 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1335307014009 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 1335307014010 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 1335307014011 dimer interface [polypeptide binding]; other site 1335307014012 PYR/PP interface [polypeptide binding]; other site 1335307014013 TPP binding site [chemical binding]; other site 1335307014014 substrate binding site [chemical binding]; other site 1335307014015 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 1335307014016 TPP-binding site; other site 1335307014017 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1335307014018 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1335307014019 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1335307014020 dimer interface [polypeptide binding]; other site 1335307014021 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1335307014022 active site 1335307014023 Fe binding site [ion binding]; other site 1335307014024 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1335307014025 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 1335307014026 putative DNA binding site [nucleotide binding]; other site 1335307014027 putative Zn2+ binding site [ion binding]; other site 1335307014028 AsnC family; Region: AsnC_trans_reg; pfam01037 1335307014029 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1335307014030 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1335307014031 Coenzyme A binding pocket [chemical binding]; other site 1335307014032 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1335307014033 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1335307014034 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 1335307014035 Protein of unknown function; Region: DUF3658; pfam12395 1335307014036 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 1335307014037 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 1335307014038 FAD binding pocket [chemical binding]; other site 1335307014039 FAD binding motif [chemical binding]; other site 1335307014040 phosphate binding motif [ion binding]; other site 1335307014041 beta-alpha-beta structure motif; other site 1335307014042 NAD(p) ribose binding residues [chemical binding]; other site 1335307014043 NAD binding pocket [chemical binding]; other site 1335307014044 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 1335307014045 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 1335307014046 catalytic loop [active] 1335307014047 iron binding site [ion binding]; other site 1335307014048 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1335307014049 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 1335307014050 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 1335307014051 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 1335307014052 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 1335307014053 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 1335307014054 SGNH_hydrolase subfamily, similar to the putative arylesterase/acylhydrolase from the rumen anaerobe Prevotella bryantii XynE. The P. bryantii XynE gene is located in a xylanase gene cluster. SGNH hydrolases are a diverse family of lipases and esterases; Region: XynE_like; cd01830 1335307014055 active site 1335307014056 catalytic triad [active] 1335307014057 oxyanion hole [active] 1335307014058 elongation factor Tu; Reviewed; Region: PRK00049 1335307014059 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1335307014060 G1 box; other site 1335307014061 GEF interaction site [polypeptide binding]; other site 1335307014062 GTP/Mg2+ binding site [chemical binding]; other site 1335307014063 Switch I region; other site 1335307014064 G2 box; other site 1335307014065 G3 box; other site 1335307014066 Switch II region; other site 1335307014067 G4 box; other site 1335307014068 G5 box; other site 1335307014069 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 1335307014070 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 1335307014071 Antibiotic Binding Site [chemical binding]; other site 1335307014072 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1335307014073 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1335307014074 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1335307014075 putative homodimer interface [polypeptide binding]; other site 1335307014076 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1335307014077 heterodimer interface [polypeptide binding]; other site 1335307014078 homodimer interface [polypeptide binding]; other site 1335307014079 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1335307014080 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 1335307014081 23S rRNA interface [nucleotide binding]; other site 1335307014082 L7/L12 interface [polypeptide binding]; other site 1335307014083 putative thiostrepton binding site; other site 1335307014084 L25 interface [polypeptide binding]; other site 1335307014085 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 1335307014086 mRNA/rRNA interface [nucleotide binding]; other site 1335307014087 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 1335307014088 23S rRNA interface [nucleotide binding]; other site 1335307014089 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1335307014090 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 1335307014091 peripheral dimer interface [polypeptide binding]; other site 1335307014092 core dimer interface [polypeptide binding]; other site 1335307014093 L10 interface [polypeptide binding]; other site 1335307014094 L11 interface [polypeptide binding]; other site 1335307014095 putative EF-Tu interaction site [polypeptide binding]; other site 1335307014096 putative EF-G interaction site [polypeptide binding]; other site 1335307014097 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1335307014098 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 1335307014099 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1335307014100 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 1335307014101 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1335307014102 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 1335307014103 RPB3 interaction site [polypeptide binding]; other site 1335307014104 RPB1 interaction site [polypeptide binding]; other site 1335307014105 RPB11 interaction site [polypeptide binding]; other site 1335307014106 RPB10 interaction site [polypeptide binding]; other site 1335307014107 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1335307014108 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1335307014109 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1335307014110 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1335307014111 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1335307014112 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1335307014113 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1335307014114 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1335307014115 DNA binding site [nucleotide binding] 1335307014116 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1335307014117 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 1335307014118 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 1335307014119 ATP binding site [chemical binding]; other site 1335307014120 putative Mg++ binding site [ion binding]; other site 1335307014121 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 1335307014122 nucleotide binding region [chemical binding]; other site 1335307014123 ATP-binding site [chemical binding]; other site 1335307014124 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1335307014125 HRDC domain; Region: HRDC; pfam00570 1335307014126 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 1335307014127 S17 interaction site [polypeptide binding]; other site 1335307014128 S8 interaction site; other site 1335307014129 16S rRNA interaction site [nucleotide binding]; other site 1335307014130 streptomycin interaction site [chemical binding]; other site 1335307014131 23S rRNA interaction site [nucleotide binding]; other site 1335307014132 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1335307014133 30S ribosomal protein S7; Validated; Region: PRK05302 1335307014134 elongation factor G; Reviewed; Region: PRK00007 1335307014135 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1335307014136 G1 box; other site 1335307014137 putative GEF interaction site [polypeptide binding]; other site 1335307014138 GTP/Mg2+ binding site [chemical binding]; other site 1335307014139 Switch I region; other site 1335307014140 G2 box; other site 1335307014141 G3 box; other site 1335307014142 Switch II region; other site 1335307014143 G4 box; other site 1335307014144 G5 box; other site 1335307014145 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 1335307014146 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 1335307014147 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 1335307014148 elongation factor Tu; Reviewed; Region: PRK00049 1335307014149 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1335307014150 G1 box; other site 1335307014151 GEF interaction site [polypeptide binding]; other site 1335307014152 GTP/Mg2+ binding site [chemical binding]; other site 1335307014153 Switch I region; other site 1335307014154 G2 box; other site 1335307014155 G3 box; other site 1335307014156 Switch II region; other site 1335307014157 G4 box; other site 1335307014158 G5 box; other site 1335307014159 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 1335307014160 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 1335307014161 Antibiotic Binding Site [chemical binding]; other site 1335307014162 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1335307014163 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1335307014164 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1335307014165 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1335307014166 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1335307014167 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1335307014168 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1335307014169 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1335307014170 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 1335307014171 putative translocon binding site; other site 1335307014172 protein-rRNA interface [nucleotide binding]; other site 1335307014173 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1335307014174 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 1335307014175 G-X-X-G motif; other site 1335307014176 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1335307014177 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 1335307014178 23S rRNA interface [nucleotide binding]; other site 1335307014179 5S rRNA interface [nucleotide binding]; other site 1335307014180 putative antibiotic binding site [chemical binding]; other site 1335307014181 L25 interface [polypeptide binding]; other site 1335307014182 L27 interface [polypeptide binding]; other site 1335307014183 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 1335307014184 23S rRNA interface [nucleotide binding]; other site 1335307014185 putative translocon interaction site; other site 1335307014186 signal recognition particle (SRP54) interaction site; other site 1335307014187 L23 interface [polypeptide binding]; other site 1335307014188 trigger factor interaction site; other site 1335307014189 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1335307014190 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1335307014191 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1335307014192 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1335307014193 RNA binding site [nucleotide binding]; other site 1335307014194 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1335307014195 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1335307014196 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1335307014197 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1335307014198 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1335307014199 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1335307014200 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1335307014201 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1335307014202 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 1335307014203 5S rRNA interface [nucleotide binding]; other site 1335307014204 L27 interface [polypeptide binding]; other site 1335307014205 23S rRNA interface [nucleotide binding]; other site 1335307014206 L5 interface [polypeptide binding]; other site 1335307014207 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1335307014208 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1335307014209 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1335307014210 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 1335307014211 23S rRNA binding site [nucleotide binding]; other site 1335307014212 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1335307014213 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1335307014214 SecY translocase; Region: SecY; pfam00344 1335307014215 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 1335307014216 rRNA binding site [nucleotide binding]; other site 1335307014217 predicted 30S ribosome binding site; other site 1335307014218 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 1335307014219 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1335307014220 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1335307014221 30S ribosomal protein S11; Validated; Region: PRK05309 1335307014222 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1335307014223 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1335307014224 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 1335307014225 RNA binding surface [nucleotide binding]; other site 1335307014226 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1335307014227 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1335307014228 alphaNTD homodimer interface [polypeptide binding]; other site 1335307014229 alphaNTD - beta interaction site [polypeptide binding]; other site 1335307014230 alphaNTD - beta' interaction site [polypeptide binding]; other site 1335307014231 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1335307014232 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1335307014233 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 1335307014234 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 1335307014235 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1335307014236 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1335307014237 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 1335307014238 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1335307014239 DsbD alpha interface [polypeptide binding]; other site 1335307014240 catalytic residues [active] 1335307014241 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 1335307014242 dimer interface [polypeptide binding]; other site 1335307014243 active site 1335307014244 aspartate-rich active site metal binding site; other site 1335307014245 allosteric magnesium binding site [ion binding]; other site 1335307014246 Schiff base residues; other site 1335307014247 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1335307014248 G1 box; other site 1335307014249 GTP/Mg2+ binding site [chemical binding]; other site 1335307014250 Switch I region; other site 1335307014251 G2 box; other site 1335307014252 G3 box; other site 1335307014253 Switch II region; other site 1335307014254 G4 box; other site 1335307014255 G5 box; other site 1335307014256 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1335307014257 Cytochrome c; Region: Cytochrom_C; cl11414 1335307014258 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 1335307014259 ResB-like family; Region: ResB; pfam05140 1335307014260 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 1335307014261 ResB-like family; Region: ResB; pfam05140 1335307014262 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 1335307014263 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1335307014264 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 1335307014265 Moco binding site; other site 1335307014266 metal coordination site [ion binding]; other site 1335307014267 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1335307014268 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1335307014269 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1335307014270 active site 1335307014271 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1335307014272 substrate binding site [chemical binding]; other site 1335307014273 catalytic residues [active] 1335307014274 dimer interface [polypeptide binding]; other site 1335307014275 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 1335307014276 putative iron binding site [ion binding]; other site 1335307014277 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1335307014278 Transglycosylase; Region: Transgly; pfam00912 1335307014279 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1335307014280 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 1335307014281 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1335307014282 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1335307014283 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1335307014284 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 1335307014285 Shikimate kinase; Region: SKI; pfam01202 1335307014286 magnesium binding site [ion binding]; other site 1335307014287 putative shikimate binding site; other site 1335307014288 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1335307014289 active site 1335307014290 dimer interface [polypeptide binding]; other site 1335307014291 metal binding site [ion binding]; metal-binding site 1335307014292 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1335307014293 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1335307014294 Zn2+ binding site [ion binding]; other site 1335307014295 Mg2+ binding site [ion binding]; other site 1335307014296 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1335307014297 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1335307014298 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 1335307014299 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 1335307014300 dimer interface [polypeptide binding]; other site 1335307014301 conserved gate region; other site 1335307014302 putative PBP binding loops; other site 1335307014303 ABC-ATPase subunit interface; other site 1335307014304 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1335307014305 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 1335307014306 dimer interface [polypeptide binding]; other site 1335307014307 conserved gate region; other site 1335307014308 putative PBP binding loops; other site 1335307014309 ABC-ATPase subunit interface; other site 1335307014310 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1335307014311 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1335307014312 Walker A/P-loop; other site 1335307014313 ATP binding site [chemical binding]; other site 1335307014314 Q-loop/lid; other site 1335307014315 ABC transporter signature motif; other site 1335307014316 Walker B; other site 1335307014317 D-loop; other site 1335307014318 H-loop/switch region; other site 1335307014319 TOBE domain; Region: TOBE_2; pfam08402 1335307014320 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 1335307014321 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1335307014322 active site 1335307014323 catalytic site [active] 1335307014324 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1335307014325 Transposase IS200 like; Region: Y1_Tnp; cl00848 1335307014326 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1335307014327 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 1335307014328 active site 1335307014329 dimer interface [polypeptide binding]; other site 1335307014330 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1335307014331 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 1335307014332 active site 1335307014333 FMN binding site [chemical binding]; other site 1335307014334 substrate binding site [chemical binding]; other site 1335307014335 3Fe-4S cluster binding site [ion binding]; other site 1335307014336 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 1335307014337 domain interface; other site 1335307014338 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 1335307014339 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1335307014340 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1335307014341 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1335307014342 amino acid carrier protein; Region: agcS; TIGR00835 1335307014343 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 1335307014344 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1335307014345 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1335307014346 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 1335307014347 FAD dependent oxidoreductase; Region: DAO; pfam01266 1335307014348 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1335307014349 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1335307014350 thiS-thiF/thiG interaction site; other site 1335307014351 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 1335307014352 ThiS interaction site; other site 1335307014353 putative active site [active] 1335307014354 tetramer interface [polypeptide binding]; other site 1335307014355 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 1335307014356 thiamine phosphate binding site [chemical binding]; other site 1335307014357 active site 1335307014358 pyrophosphate binding site [ion binding]; other site 1335307014359 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1335307014360 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1335307014361 Walker A/P-loop; other site 1335307014362 ATP binding site [chemical binding]; other site 1335307014363 Q-loop/lid; other site 1335307014364 ABC transporter signature motif; other site 1335307014365 Walker B; other site 1335307014366 D-loop; other site 1335307014367 H-loop/switch region; other site 1335307014368 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1335307014369 Permease; Region: Permease; pfam02405 1335307014370 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1335307014371 mce related protein; Region: MCE; pfam02470 1335307014372 VacJ like lipoprotein; Region: VacJ; cl01073 1335307014373 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 1335307014374 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 1335307014375 anti sigma factor interaction site; other site 1335307014376 regulatory phosphorylation site [posttranslational modification]; other site 1335307014377 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1335307014378 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1335307014379 Walker A/P-loop; other site 1335307014380 ATP binding site [chemical binding]; other site 1335307014381 Q-loop/lid; other site 1335307014382 ABC transporter signature motif; other site 1335307014383 Walker B; other site 1335307014384 D-loop; other site 1335307014385 H-loop/switch region; other site 1335307014386 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1335307014387 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1335307014388 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1335307014389 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1335307014390 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 1335307014391 hinge; other site 1335307014392 active site 1335307014393 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1335307014394 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1335307014395 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1335307014396 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 1335307014397 NAD binding site [chemical binding]; other site 1335307014398 dimerization interface [polypeptide binding]; other site 1335307014399 product binding site; other site 1335307014400 substrate binding site [chemical binding]; other site 1335307014401 zinc binding site [ion binding]; other site 1335307014402 catalytic residues [active] 1335307014403 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 1335307014404 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 1335307014405 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307014406 homodimer interface [polypeptide binding]; other site 1335307014407 catalytic residue [active] 1335307014408 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1335307014409 putative active site pocket [active] 1335307014410 4-fold oligomerization interface [polypeptide binding]; other site 1335307014411 metal binding residues [ion binding]; metal-binding site 1335307014412 3-fold/trimer interface [polypeptide binding]; other site 1335307014413 MarC family integral membrane protein; Region: MarC; cl00919 1335307014414 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1335307014415 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1335307014416 putative active site [active] 1335307014417 oxyanion strand; other site 1335307014418 catalytic triad [active] 1335307014419 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 1335307014420 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1335307014421 catalytic residues [active] 1335307014422 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 1335307014423 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1335307014424 substrate binding site [chemical binding]; other site 1335307014425 glutamase interaction surface [polypeptide binding]; other site 1335307014426 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1335307014427 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 1335307014428 metal binding site [ion binding]; metal-binding site 1335307014429 Predicted membrane protein [Function unknown]; Region: COG3671 1335307014430 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 1335307014431 nucleotide binding site/active site [active] 1335307014432 HIT family signature motif; other site 1335307014433 catalytic residue [active] 1335307014434 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 1335307014435 sec-independent translocase; Provisional; Region: tatB; PRK01919 1335307014436 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1335307014437 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1335307014438 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1335307014439 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 1335307014440 protein binding site [polypeptide binding]; other site 1335307014441 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1335307014442 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1335307014443 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1335307014444 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 1335307014445 [2Fe-2S] cluster binding site [ion binding]; other site 1335307014446 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1335307014447 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 1335307014448 Qi binding site; other site 1335307014449 intrachain domain interface; other site 1335307014450 interchain domain interface [polypeptide binding]; other site 1335307014451 heme bH binding site [chemical binding]; other site 1335307014452 heme bL binding site [chemical binding]; other site 1335307014453 Qo binding site; other site 1335307014454 interchain domain interface [polypeptide binding]; other site 1335307014455 intrachain domain interface; other site 1335307014456 Qi binding site; other site 1335307014457 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 1335307014458 Qo binding site; other site 1335307014459 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1335307014460 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1335307014461 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 1335307014462 C-terminal domain interface [polypeptide binding]; other site 1335307014463 putative GSH binding site (G-site) [chemical binding]; other site 1335307014464 dimer interface [polypeptide binding]; other site 1335307014465 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1335307014466 dimer interface [polypeptide binding]; other site 1335307014467 N-terminal domain interface [polypeptide binding]; other site 1335307014468 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1335307014469 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 1335307014470 Rci recombinase, C-terminal catalytic domain. Rci enzymes are found in IncI1 incompatibility group plasmids such as R64. These recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain...; Region: INT_Rci; cd00796 1335307014471 catalytic residues [active] 1335307014472 Int/Topo IB signature motif; other site 1335307014473 Helix-turn-helix domain; Region: HTH_36; pfam13730 1335307014474 Type IV secretion system proteins; Region: T4SS; pfam07996 1335307014475 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 1335307014476 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 1335307014477 TrwC relaxase; Region: TrwC; pfam08751 1335307014478 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 1335307014479 AAA domain; Region: AAA_30; pfam13604 1335307014480 Family description; Region: UvrD_C_2; pfam13538 1335307014481 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1335307014482 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 1335307014483 Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Poa1p_like; cd02901 1335307014484 ADP-ribose binding site [chemical binding]; other site 1335307014485 Baseplate J-like protein; Region: Baseplate_J; cl01294 1335307014486 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 1335307014487 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1335307014488 DNA methylase; Region: N6_N4_Mtase; pfam01555 1335307014489 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 1335307014490 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 1335307014491 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1335307014492 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 1335307014493 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1335307014494 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 1335307014495 TPR repeat; Region: TPR_11; pfam13414 1335307014496 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 1335307014497 TPR motif; other site 1335307014498 binding surface 1335307014499 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1335307014500 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 1335307014501 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1335307014502 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1335307014503 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3518 1335307014504 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1335307014505 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 1335307014506 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 1335307014507 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1335307014508 Clp amino terminal domain; Region: Clp_N; pfam02861 1335307014509 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 1335307014510 Walker A motif; other site 1335307014511 ATP binding site [chemical binding]; other site 1335307014512 Walker B motif; other site 1335307014513 arginine finger; other site 1335307014514 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 1335307014515 Walker A motif; other site 1335307014516 ATP binding site [chemical binding]; other site 1335307014517 Walker B motif; other site 1335307014518 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1335307014519 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 1335307014520 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1335307014521 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1335307014522 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1335307014523 ligand binding site [chemical binding]; other site 1335307014524 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 1335307014525 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 1335307014526 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1335307014527 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1335307014528 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1335307014529 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1335307014530 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 1335307014531 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1335307014532 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 1335307014533 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 1335307014534 putative active site [active] 1335307014535 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1335307014536 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1335307014537 Walker A/P-loop; other site 1335307014538 ATP binding site [chemical binding]; other site 1335307014539 Q-loop/lid; other site 1335307014540 ABC transporter signature motif; other site 1335307014541 Walker B; other site 1335307014542 D-loop; other site 1335307014543 H-loop/switch region; other site 1335307014544 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1335307014545 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1335307014546 HlyD family secretion protein; Region: HlyD_3; pfam13437 1335307014547 Peptidase family M1; Region: Peptidase_M1; pfam01433 1335307014548 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1335307014549 Zn binding site [ion binding]; other site 1335307014550 Water Stress and Hypersensitive response; Region: WHy; smart00769 1335307014551 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1335307014552 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 1335307014553 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 1335307014554 S-adenosylmethionine binding site [chemical binding]; other site 1335307014555 Methyltransferase domain; Region: Methyltransf_32; pfam13679 1335307014556 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1335307014557 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 1335307014558 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1335307014559 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1335307014560 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 1335307014561 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1335307014562 putative substrate translocation pore; other site 1335307014563 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 1335307014564 putative FMN binding site [chemical binding]; other site 1335307014565 putative chaperone; Provisional; Region: PRK11678 1335307014566 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1335307014567 nucleotide binding site [chemical binding]; other site 1335307014568 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1335307014569 SBD interface [polypeptide binding]; other site 1335307014570 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 1335307014571 DNA-binding site [nucleotide binding]; DNA binding site 1335307014572 RNA-binding motif; other site 1335307014573 amino acid transporter; Region: 2A0306; TIGR00909 1335307014574 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 1335307014575 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1335307014576 putative active site [active] 1335307014577 metal binding site [ion binding]; metal-binding site 1335307014578 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1335307014579 Flavoprotein; Region: Flavoprotein; pfam02441 1335307014580 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 1335307014581 putative GSH binding site [chemical binding]; other site 1335307014582 catalytic residues [active] 1335307014583 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1335307014584 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 1335307014585 S-adenosylmethionine binding site [chemical binding]; other site 1335307014586 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1335307014587 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1335307014588 RF-1 domain; Region: RF-1; pfam00472 1335307014589 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1335307014590 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1335307014591 tRNA; other site 1335307014592 putative tRNA binding site [nucleotide binding]; other site 1335307014593 putative NADP binding site [chemical binding]; other site 1335307014594 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1335307014595 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1335307014596 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1335307014597 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 1335307014598 active site 1335307014599 Isochorismatase family; Region: Isochorismatase; pfam00857 1335307014600 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 1335307014601 catalytic triad [active] 1335307014602 conserved cis-peptide bond; other site 1335307014603 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1335307014604 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 1335307014605 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1335307014606 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307014607 Walker A/P-loop; other site 1335307014608 ATP binding site [chemical binding]; other site 1335307014609 Q-loop/lid; other site 1335307014610 ABC transporter signature motif; other site 1335307014611 Walker B; other site 1335307014612 D-loop; other site 1335307014613 H-loop/switch region; other site 1335307014614 ABC transporter; Region: ABC_tran_2; pfam12848 1335307014615 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1335307014616 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 1335307014617 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1335307014618 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1335307014619 active site 1335307014620 catalytic site [active] 1335307014621 Protein of unknown function (DUF419); Region: DUF419; cl15265 1335307014622 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1335307014623 Helix-turn-helix domain; Region: HTH_18; pfam12833 1335307014624 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1335307014625 Transposase domain (DUF772); Region: DUF772; pfam05598 1335307014626 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1335307014627 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1335307014628 GTP-binding protein YchF; Reviewed; Region: PRK09601 1335307014629 YchF GTPase; Region: YchF; cd01900 1335307014630 G1 box; other site 1335307014631 GTP/Mg2+ binding site [chemical binding]; other site 1335307014632 Switch I region; other site 1335307014633 G2 box; other site 1335307014634 Switch II region; other site 1335307014635 G3 box; other site 1335307014636 G4 box; other site 1335307014637 G5 box; other site 1335307014638 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 1335307014639 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608 1335307014640 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1335307014641 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1335307014642 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 1335307014643 dimerization domain [polypeptide binding]; other site 1335307014644 dimer interface [polypeptide binding]; other site 1335307014645 catalytic residues [active] 1335307014646 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 1335307014647 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 1335307014648 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 1335307014649 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1335307014650 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1335307014651 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1335307014652 ligand binding site [chemical binding]; other site 1335307014653 active site 1335307014654 UGI interface [polypeptide binding]; other site 1335307014655 catalytic site [active] 1335307014656 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1335307014657 putative active site [active] 1335307014658 putative metal binding residues [ion binding]; other site 1335307014659 signature motif; other site 1335307014660 putative triphosphate binding site [ion binding]; other site 1335307014661 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 1335307014662 active site 1335307014663 ribulose/triose binding site [chemical binding]; other site 1335307014664 phosphate binding site [ion binding]; other site 1335307014665 substrate (anthranilate) binding pocket [chemical binding]; other site 1335307014666 product (indole) binding pocket [chemical binding]; other site 1335307014667 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1335307014668 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1335307014669 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1335307014670 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1335307014671 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1335307014672 glutamine binding [chemical binding]; other site 1335307014673 catalytic triad [active] 1335307014674 anthranilate synthase component I; Provisional; Region: PRK13565 1335307014675 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1335307014676 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1335307014677 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1335307014678 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 1335307014679 motif II; other site 1335307014680 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 1335307014681 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1335307014682 substrate binding site [chemical binding]; other site 1335307014683 hexamer interface [polypeptide binding]; other site 1335307014684 metal binding site [ion binding]; metal-binding site 1335307014685 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1335307014686 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 1335307014687 MltA specific insert domain; Region: MltA; smart00925 1335307014688 3D domain; Region: 3D; pfam06725 1335307014689 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 1335307014690 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 1335307014691 active site 1335307014692 AMP binding site [chemical binding]; other site 1335307014693 homodimer interface [polypeptide binding]; other site 1335307014694 acyl-activating enzyme (AAE) consensus motif; other site 1335307014695 CoA binding site [chemical binding]; other site 1335307014696 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 1335307014697 CoenzymeA binding site [chemical binding]; other site 1335307014698 subunit interaction site [polypeptide binding]; other site 1335307014699 PHB binding site; other site 1335307014700 enoyl-CoA hydratase; Provisional; Region: PRK08140 1335307014701 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 1335307014702 substrate binding site [chemical binding]; other site 1335307014703 oxyanion hole (OAH) forming residues; other site 1335307014704 trimer interface [polypeptide binding]; other site 1335307014705 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1335307014706 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 1335307014707 dimer interface [polypeptide binding]; other site 1335307014708 active site 1335307014709 phenylacetic acid degradation protein paaN; Region: PaaN_2; TIGR02288 1335307014710 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1335307014711 NAD(P) binding site [chemical binding]; other site 1335307014712 catalytic residues [active] 1335307014713 enoyl-CoA hydratase; Provisional; Region: PRK05862 1335307014714 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 1335307014715 substrate binding site [chemical binding]; other site 1335307014716 oxyanion hole (OAH) forming residues; other site 1335307014717 trimer interface [polypeptide binding]; other site 1335307014718 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 1335307014719 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1335307014720 putative [4Fe-4S] binding site [ion binding]; other site 1335307014721 putative molybdopterin cofactor binding site [chemical binding]; other site 1335307014722 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 1335307014723 putative molybdopterin cofactor binding site; other site 1335307014724 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 1335307014725 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1335307014726 acyl-activating enzyme (AAE) consensus motif; other site 1335307014727 putative AMP binding site [chemical binding]; other site 1335307014728 putative active site [active] 1335307014729 putative CoA binding site [chemical binding]; other site 1335307014730 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307014731 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307014732 trimer interface [polypeptide binding]; other site 1335307014733 eyelet of channel; other site 1335307014734 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1335307014735 diiron binding motif [ion binding]; other site 1335307014736 cell division protein MraZ; Reviewed; Region: PRK00326 1335307014737 MraZ protein; Region: MraZ; pfam02381 1335307014738 MraZ protein; Region: MraZ; pfam02381 1335307014739 MraW methylase family; Region: Methyltransf_5; cl17771 1335307014740 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1335307014741 Cell division protein FtsL; Region: FtsL; pfam04999 1335307014742 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1335307014743 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1335307014744 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1335307014745 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1335307014746 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1335307014747 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1335307014748 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1335307014749 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1335307014750 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1335307014751 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1335307014752 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1335307014753 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 1335307014754 Mg++ binding site [ion binding]; other site 1335307014755 putative catalytic motif [active] 1335307014756 putative substrate binding site [chemical binding]; other site 1335307014757 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 1335307014758 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1335307014759 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1335307014760 cell division protein FtsW; Region: ftsW; TIGR02614 1335307014761 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1335307014762 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 1335307014763 active site 1335307014764 homodimer interface [polypeptide binding]; other site 1335307014765 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1335307014766 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1335307014767 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1335307014768 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1335307014769 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1335307014770 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1335307014771 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1335307014772 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1335307014773 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1335307014774 Cell division protein FtsQ; Region: FtsQ; pfam03799 1335307014775 cell division protein FtsA; Region: ftsA; TIGR01174 1335307014776 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1335307014777 nucleotide binding site [chemical binding]; other site 1335307014778 Cell division protein FtsA; Region: FtsA; pfam14450 1335307014779 cell division protein FtsZ; Validated; Region: PRK09330 1335307014780 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 1335307014781 nucleotide binding site [chemical binding]; other site 1335307014782 SulA interaction site; other site 1335307014783 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 1335307014784 catalytic triad [active] 1335307014785 dimer interface [polypeptide binding]; other site 1335307014786 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1335307014787 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1335307014788 Protein of unknown function (DUF721); Region: DUF721; pfam05258 1335307014789 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1335307014790 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 1335307014791 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1335307014792 SEC-C motif; Region: SEC-C; pfam02810 1335307014793 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 1335307014794 heterotetramer interface [polypeptide binding]; other site 1335307014795 active site pocket [active] 1335307014796 cleavage site 1335307014797 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1335307014798 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 1335307014799 Walker A motif; other site 1335307014800 ATP binding site [chemical binding]; other site 1335307014801 Walker B motif; other site 1335307014802 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 1335307014803 active site 1335307014804 8-oxo-dGMP binding site [chemical binding]; other site 1335307014805 nudix motif; other site 1335307014806 metal binding site [ion binding]; metal-binding site 1335307014807 Domain of unknown function (DUF329); Region: DUF329; pfam03884 1335307014808 hypothetical protein; Provisional; Region: PRK05287 1335307014809 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1335307014810 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 1335307014811 CoA-binding site [chemical binding]; other site 1335307014812 ATP-binding [chemical binding]; other site 1335307014813 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 1335307014814 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1335307014815 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1335307014816 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1335307014817 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1335307014818 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1335307014819 Type II/IV secretion system protein; Region: T2SE; pfam00437 1335307014820 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 1335307014821 Walker A motif; other site 1335307014822 ATP binding site [chemical binding]; other site 1335307014823 Walker B motif; other site 1335307014824 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1335307014825 Domain of unknown function DUF21; Region: DUF21; pfam01595 1335307014826 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 1335307014827 Transporter associated domain; Region: CorC_HlyC; smart01091 1335307014828 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1335307014829 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 1335307014830 active site 1335307014831 DNA binding site [nucleotide binding] 1335307014832 Int/Topo IB signature motif; other site 1335307014833 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1335307014834 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1335307014835 conjugal transfer relaxase TraI; Provisional; Region: PRK13878 1335307014836 Predicted transcriptional regulator [Transcription]; Region: COG3905 1335307014837 AAA domain; Region: AAA_13; pfam13166 1335307014838 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307014839 Q-loop/lid; other site 1335307014840 ABC transporter signature motif; other site 1335307014841 Walker B; other site 1335307014842 D-loop; other site 1335307014843 conjugal transfer/type IV secretion protein DotA/TraY; Region: DotA_TraY; TIGR04346 1335307014844 TrfA protein; Region: TrfA; pfam07042 1335307014845 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1335307014846 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1335307014847 substrate binding pocket [chemical binding]; other site 1335307014848 chain length determination region; other site 1335307014849 substrate-Mg2+ binding site; other site 1335307014850 catalytic residues [active] 1335307014851 aspartate-rich region 1; other site 1335307014852 active site lid residues [active] 1335307014853 aspartate-rich region 2; other site 1335307014854 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1335307014855 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1335307014856 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1335307014857 GTPase CgtA; Reviewed; Region: obgE; PRK12298 1335307014858 GTP1/OBG; Region: GTP1_OBG; pfam01018 1335307014859 Obg GTPase; Region: Obg; cd01898 1335307014860 G1 box; other site 1335307014861 GTP/Mg2+ binding site [chemical binding]; other site 1335307014862 Switch I region; other site 1335307014863 G2 box; other site 1335307014864 G3 box; other site 1335307014865 Switch II region; other site 1335307014866 G4 box; other site 1335307014867 G5 box; other site 1335307014868 gamma-glutamyl kinase; Provisional; Region: PRK05429 1335307014869 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 1335307014870 nucleotide binding site [chemical binding]; other site 1335307014871 homotetrameric interface [polypeptide binding]; other site 1335307014872 putative phosphate binding site [ion binding]; other site 1335307014873 putative allosteric binding site; other site 1335307014874 PUA domain; Region: PUA; pfam01472 1335307014875 CNP1-like family; Region: CNP1; pfam08750 1335307014876 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 1335307014877 putative active site [active] 1335307014878 Ap4A binding site [chemical binding]; other site 1335307014879 nudix motif; other site 1335307014880 putative metal binding site [ion binding]; other site 1335307014881 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1335307014882 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 1335307014883 dimer interface [polypeptide binding]; other site 1335307014884 motif 1; other site 1335307014885 active site 1335307014886 motif 2; other site 1335307014887 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 1335307014888 putative deacylase active site [active] 1335307014889 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 1335307014890 active site 1335307014891 motif 3; other site 1335307014892 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 1335307014893 anticodon binding site; other site 1335307014894 MarC family integral membrane protein; Region: MarC; cl00919 1335307014895 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1335307014896 active site 1335307014897 signal recognition particle protein; Provisional; Region: PRK10867 1335307014898 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1335307014899 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 1335307014900 P loop; other site 1335307014901 GTP binding site [chemical binding]; other site 1335307014902 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1335307014903 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1335307014904 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1335307014905 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 1335307014906 amidase catalytic site [active] 1335307014907 Zn binding residues [ion binding]; other site 1335307014908 substrate binding site [chemical binding]; other site 1335307014909 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 1335307014910 ATP cone domain; Region: ATP-cone; pfam03477 1335307014911 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1335307014912 active site 1335307014913 dimer interface [polypeptide binding]; other site 1335307014914 catalytic residues [active] 1335307014915 effector binding site; other site 1335307014916 R2 peptide binding site; other site 1335307014917 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1335307014918 dimer interface [polypeptide binding]; other site 1335307014919 putative radical transfer pathway; other site 1335307014920 diiron center [ion binding]; other site 1335307014921 tyrosyl radical; other site 1335307014922 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 1335307014923 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1335307014924 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 1335307014925 substrate binding site [chemical binding]; other site 1335307014926 ATP binding site [chemical binding]; other site 1335307014927 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 1335307014928 dimer interface [polypeptide binding]; other site 1335307014929 catalytic triad [active] 1335307014930 peroxidatic and resolving cysteines [active] 1335307014931 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 1335307014932 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 1335307014933 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 1335307014934 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1335307014935 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 1335307014936 S-adenosylmethionine binding site [chemical binding]; other site 1335307014937 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1335307014938 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1335307014939 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1335307014940 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1335307014941 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1335307014942 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 1335307014943 carboxyltransferase (CT) interaction site; other site 1335307014944 biotinylation site [posttranslational modification]; other site 1335307014945 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 1335307014946 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1335307014947 active site 1335307014948 trimer interface [polypeptide binding]; other site 1335307014949 dimer interface [polypeptide binding]; other site 1335307014950 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 1335307014951 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1335307014952 catalytic residues [active] 1335307014953 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1335307014954 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1335307014955 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1335307014956 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1335307014957 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 1335307014958 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1335307014959 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 1335307014960 RNB domain; Region: RNB; pfam00773 1335307014961 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1335307014962 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1335307014963 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1335307014964 shikimate binding site; other site 1335307014965 NAD(P) binding site [chemical binding]; other site 1335307014966 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1335307014967 Transglycosylase; Region: Transgly; cl17702 1335307014968 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 1335307014969 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 1335307014970 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1335307014971 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1335307014972 Bacterial transcriptional regulator; Region: IclR; pfam01614 1335307014973 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 1335307014974 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 1335307014975 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 1335307014976 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1335307014977 active site 1335307014978 intersubunit interface [polypeptide binding]; other site 1335307014979 catalytic residue [active] 1335307014980 short chain dehydrogenase; Provisional; Region: PRK07063 1335307014981 classical (c) SDRs; Region: SDR_c; cd05233 1335307014982 NAD(P) binding site [chemical binding]; other site 1335307014983 active site 1335307014984 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 1335307014985 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 1335307014986 ligand binding site [chemical binding]; other site 1335307014987 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 1335307014988 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1335307014989 Walker A/P-loop; other site 1335307014990 ATP binding site [chemical binding]; other site 1335307014991 Q-loop/lid; other site 1335307014992 ABC transporter signature motif; other site 1335307014993 Walker B; other site 1335307014994 D-loop; other site 1335307014995 H-loop/switch region; other site 1335307014996 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1335307014997 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1335307014998 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 1335307014999 TM-ABC transporter signature motif; other site 1335307015000 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1335307015001 classical (c) SDRs; Region: SDR_c; cd05233 1335307015002 NAD(P) binding site [chemical binding]; other site 1335307015003 active site 1335307015004 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 1335307015005 active site 1335307015006 catalytic residues [active] 1335307015007 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 1335307015008 active site 1335307015009 dimer interface [polypeptide binding]; other site 1335307015010 Competence-damaged protein; Region: CinA; pfam02464 1335307015011 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1335307015012 tetramer interfaces [polypeptide binding]; other site 1335307015013 binuclear metal-binding site [ion binding]; other site 1335307015014 thiamine monophosphate kinase; Provisional; Region: PRK05731 1335307015015 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 1335307015016 ATP binding site [chemical binding]; other site 1335307015017 dimerization interface [polypeptide binding]; other site 1335307015018 malic enzyme; Reviewed; Region: PRK12862 1335307015019 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1335307015020 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1335307015021 putative NAD(P) binding site [chemical binding]; other site 1335307015022 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1335307015023 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate...; Region: RNase_Sa; cd00607 1335307015024 active site 1335307015025 barstar interaction site; other site 1335307015026 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 1335307015027 putative RNAase interaction site [polypeptide binding]; other site 1335307015028 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1335307015029 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_8; cd07246 1335307015030 putative dimer interface [polypeptide binding]; other site 1335307015031 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1335307015032 spermidine synthase; Provisional; Region: PRK00811 1335307015033 Spermidine synthase [Amino acid transport and metabolism]; Region: SpeE; COG0421 1335307015034 transketolase; Reviewed; Region: PRK12753 1335307015035 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 1335307015036 TPP-binding site [chemical binding]; other site 1335307015037 dimer interface [polypeptide binding]; other site 1335307015038 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 1335307015039 PYR/PP interface [polypeptide binding]; other site 1335307015040 dimer interface [polypeptide binding]; other site 1335307015041 TPP binding site [chemical binding]; other site 1335307015042 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1335307015043 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1335307015044 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1335307015045 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1335307015046 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1335307015047 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 1335307015048 cyanate hydratase; Validated; Region: PRK02866 1335307015049 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 1335307015050 oligomer interface [polypeptide binding]; other site 1335307015051 active site 1335307015052 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 1335307015053 active site clefts [active] 1335307015054 zinc binding site [ion binding]; other site 1335307015055 dimer interface [polypeptide binding]; other site 1335307015056 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 1335307015057 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307015058 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 1335307015059 dimerization interface [polypeptide binding]; other site 1335307015060 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1335307015061 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1335307015062 DNA-binding site [nucleotide binding]; DNA binding site 1335307015063 FCD domain; Region: FCD; pfam07729 1335307015064 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 1335307015065 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1335307015066 allantoicase; Provisional; Region: PRK13257 1335307015067 Allantoicase repeat; Region: Allantoicase; pfam03561 1335307015068 Allantoicase repeat; Region: Allantoicase; pfam03561 1335307015069 ureidoglycolate hydrolase; Provisional; Region: PRK13395 1335307015070 ferric uptake regulator; Provisional; Region: fur; PRK09462 1335307015071 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1335307015072 metal binding site 2 [ion binding]; metal-binding site 1335307015073 putative DNA binding helix; other site 1335307015074 metal binding site 1 [ion binding]; metal-binding site 1335307015075 dimer interface [polypeptide binding]; other site 1335307015076 structural Zn2+ binding site [ion binding]; other site 1335307015077 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1335307015078 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1335307015079 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1335307015080 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1335307015081 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1335307015082 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1335307015083 TolR protein; Region: tolR; TIGR02801 1335307015084 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1335307015085 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1335307015086 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1335307015087 HIGH motif; other site 1335307015088 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1335307015089 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1335307015090 active site 1335307015091 KMSKS motif; other site 1335307015092 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1335307015093 tRNA binding surface [nucleotide binding]; other site 1335307015094 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1335307015095 Lipopolysaccharide-assembly; Region: LptE; cl01125 1335307015096 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1335307015097 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1335307015098 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1335307015099 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1335307015100 putative catalytic cysteine [active] 1335307015101 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 1335307015102 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1335307015103 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1335307015104 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 1335307015105 putative active site [active] 1335307015106 phosphogluconate dehydratase; Validated; Region: PRK09054 1335307015107 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1335307015108 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1335307015109 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1335307015110 active site 1335307015111 intersubunit interface [polypeptide binding]; other site 1335307015112 catalytic residue [active] 1335307015113 GntP family permease; Region: GntP_permease; pfam02447 1335307015114 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1335307015115 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 1335307015116 ATP-binding site [chemical binding]; other site 1335307015117 Gluconate-6-phosphate binding site [chemical binding]; other site 1335307015118 Shikimate kinase; Region: SKI; pfam01202 1335307015119 adenylosuccinate lyase; Provisional; Region: PRK09285 1335307015120 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1335307015121 tetramer interface [polypeptide binding]; other site 1335307015122 active site 1335307015123 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1335307015124 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307015125 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307015126 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 1335307015127 dimerization interface [polypeptide binding]; other site 1335307015128 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1335307015129 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1335307015130 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 1335307015131 NAD(P) binding site [chemical binding]; other site 1335307015132 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1335307015133 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 1335307015134 substrate binding pocket [chemical binding]; other site 1335307015135 membrane-bound complex binding site; other site 1335307015136 hinge residues; other site 1335307015137 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1335307015138 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 1335307015139 dimer interface [polypeptide binding]; other site 1335307015140 conserved gate region; other site 1335307015141 putative PBP binding loops; other site 1335307015142 ABC-ATPase subunit interface; other site 1335307015143 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1335307015144 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 1335307015145 dimer interface [polypeptide binding]; other site 1335307015146 conserved gate region; other site 1335307015147 putative PBP binding loops; other site 1335307015148 ABC-ATPase subunit interface; other site 1335307015149 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1335307015150 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1335307015151 Walker A/P-loop; other site 1335307015152 ATP binding site [chemical binding]; other site 1335307015153 Q-loop/lid; other site 1335307015154 ABC transporter signature motif; other site 1335307015155 Walker B; other site 1335307015156 D-loop; other site 1335307015157 H-loop/switch region; other site 1335307015158 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1335307015159 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1335307015160 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1335307015161 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 1335307015162 ring oligomerisation interface [polypeptide binding]; other site 1335307015163 ATP/Mg binding site [chemical binding]; other site 1335307015164 stacking interactions; other site 1335307015165 hinge regions; other site 1335307015166 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 1335307015167 oligomerisation interface [polypeptide binding]; other site 1335307015168 mobile loop; other site 1335307015169 roof hairpin; other site 1335307015170 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1335307015171 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 1335307015172 putative dimer interface [polypeptide binding]; other site 1335307015173 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1335307015174 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 1335307015175 putative dimer interface [polypeptide binding]; other site 1335307015176 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 1335307015177 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1335307015178 putative active site [active] 1335307015179 putative dimer interface [polypeptide binding]; other site 1335307015180 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 1335307015181 active site 1335307015182 substrate binding pocket [chemical binding]; other site 1335307015183 dimer interface [polypeptide binding]; other site 1335307015184 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 1335307015185 OsmC-like protein; Region: OsmC; cl00767 1335307015186 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 1335307015187 23S rRNA interface [nucleotide binding]; other site 1335307015188 L3 interface [polypeptide binding]; other site 1335307015189 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1335307015190 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1335307015191 Cupin; Region: Cupin_6; pfam12852 1335307015192 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1335307015193 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307015194 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1335307015195 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 1335307015196 C-terminal domain interface [polypeptide binding]; other site 1335307015197 GSH binding site (G-site) [chemical binding]; other site 1335307015198 dimer interface [polypeptide binding]; other site 1335307015199 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1335307015200 N-terminal domain interface [polypeptide binding]; other site 1335307015201 dimer interface [polypeptide binding]; other site 1335307015202 substrate binding pocket (H-site) [chemical binding]; other site 1335307015203 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1335307015204 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 1335307015205 C-terminal domain interface [polypeptide binding]; other site 1335307015206 GSH binding site (G-site) [chemical binding]; other site 1335307015207 dimer interface [polypeptide binding]; other site 1335307015208 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1335307015209 N-terminal domain interface [polypeptide binding]; other site 1335307015210 putative dimer interface [polypeptide binding]; other site 1335307015211 active site 1335307015212 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1335307015213 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1335307015214 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1335307015215 active site 1335307015216 HIGH motif; other site 1335307015217 dimer interface [polypeptide binding]; other site 1335307015218 KMSKS motif; other site 1335307015219 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 1335307015220 RNA binding surface [nucleotide binding]; other site 1335307015221 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 1335307015222 putative active site [active] 1335307015223 dimerization interface [polypeptide binding]; other site 1335307015224 putative tRNAtyr binding site [nucleotide binding]; other site 1335307015225 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 1335307015226 catalytic core [active] 1335307015227 Putative ParB-like nuclease; Region: ParBc_2; cl17538 1335307015228 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 1335307015229 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1335307015230 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 1335307015231 Walker A motif; other site 1335307015232 ATP binding site [chemical binding]; other site 1335307015233 Walker B motif; other site 1335307015234 arginine finger; other site 1335307015235 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1335307015236 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1335307015237 RuvA N terminal domain; Region: RuvA_N; pfam01330 1335307015238 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1335307015239 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 1335307015240 putative DNA-binding cleft [nucleotide binding]; other site 1335307015241 dimer interface [polypeptide binding]; other site 1335307015242 active site 1335307015243 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1335307015244 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 1335307015245 purine monophosphate binding site [chemical binding]; other site 1335307015246 dimer interface [polypeptide binding]; other site 1335307015247 putative catalytic residues [active] 1335307015248 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1335307015249 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1335307015250 DNA-binding protein Fis; Provisional; Region: PRK01905 1335307015251 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 1335307015252 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 1335307015253 FMN binding site [chemical binding]; other site 1335307015254 active site 1335307015255 catalytic residues [active] 1335307015256 substrate binding site [chemical binding]; other site 1335307015257 hypothetical protein; Provisional; Region: PRK06996 1335307015258 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1335307015259 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1335307015260 proline aminopeptidase P II; Provisional; Region: PRK10879 1335307015261 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 1335307015262 active site 1335307015263 putative glutathione S-transferase; Provisional; Region: PRK10357 1335307015264 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 1335307015265 putative C-terminal domain interface [polypeptide binding]; other site 1335307015266 putative GSH binding site (G-site) [chemical binding]; other site 1335307015267 putative dimer interface [polypeptide binding]; other site 1335307015268 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1335307015269 dimer interface [polypeptide binding]; other site 1335307015270 N-terminal domain interface [polypeptide binding]; other site 1335307015271 putative substrate binding pocket (H-site) [chemical binding]; other site 1335307015272 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 1335307015273 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 1335307015274 active site 1335307015275 FMN binding site [chemical binding]; other site 1335307015276 substrate binding site [chemical binding]; other site 1335307015277 3Fe-4S cluster binding site [ion binding]; other site 1335307015278 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1335307015279 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 1335307015280 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 1335307015281 nudix motif; other site 1335307015282 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1335307015283 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1335307015284 ligand binding site [chemical binding]; other site 1335307015285 homodimer interface [polypeptide binding]; other site 1335307015286 NAD(P) binding site [chemical binding]; other site 1335307015287 trimer interface B [polypeptide binding]; other site 1335307015288 trimer interface A [polypeptide binding]; other site 1335307015289 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1335307015290 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1335307015291 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1335307015292 Predicted transcriptional regulator [Transcription]; Region: COG2378 1335307015293 HTH domain; Region: HTH_11; pfam08279 1335307015294 WYL domain; Region: WYL; pfam13280 1335307015295 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 1335307015296 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1335307015297 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1335307015298 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 1335307015299 Site-specific recombinase; Region: SpecificRecomb; pfam10136 1335307015300 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1335307015301 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1335307015302 mce related protein; Region: MCE; pfam02470 1335307015303 mce related protein; Region: MCE; pfam02470 1335307015304 Paraquat-inducible protein A; Region: PqiA; pfam04403 1335307015305 Paraquat-inducible protein A; Region: PqiA; pfam04403 1335307015306 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1335307015307 YceI-like domain; Region: YceI; smart00867 1335307015308 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1335307015309 citrate-proton symporter; Provisional; Region: PRK15075 1335307015310 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1335307015311 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1335307015312 Protein export membrane protein; Region: SecD_SecF; pfam02355 1335307015313 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1335307015314 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1335307015315 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1335307015316 Protein export membrane protein; Region: SecD_SecF; cl14618 1335307015317 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1335307015318 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1335307015319 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1335307015320 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1335307015321 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1335307015322 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1335307015323 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 1335307015324 generic binding surface II; other site 1335307015325 ssDNA binding site; other site 1335307015326 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 1335307015327 ATP binding site [chemical binding]; other site 1335307015328 putative Mg++ binding site [ion binding]; other site 1335307015329 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 1335307015330 nucleotide binding region [chemical binding]; other site 1335307015331 ATP-binding site [chemical binding]; other site 1335307015332 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307015333 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307015334 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 1335307015335 dimerization interface [polypeptide binding]; other site 1335307015336 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1335307015337 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 1335307015338 dimer interface [polypeptide binding]; other site 1335307015339 active site 1335307015340 heme binding site [chemical binding]; other site 1335307015341 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1335307015342 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1335307015343 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1335307015344 dimerization interface [polypeptide binding]; other site 1335307015345 DPS ferroxidase diiron center [ion binding]; other site 1335307015346 ion pore; other site 1335307015347 Predicted transcriptional regulators [Transcription]; Region: COG1733 1335307015348 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1335307015349 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1335307015350 UbiA prenyltransferase family; Region: UbiA; pfam01040 1335307015351 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 1335307015352 active site 1335307015353 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 1335307015354 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 1335307015355 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1335307015356 DNA-binding site [nucleotide binding]; DNA binding site 1335307015357 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1335307015358 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 1335307015359 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 1335307015360 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 1335307015361 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 1335307015362 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 1335307015363 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1335307015364 Walker A/P-loop; other site 1335307015365 ATP binding site [chemical binding]; other site 1335307015366 Q-loop/lid; other site 1335307015367 ABC transporter signature motif; other site 1335307015368 Walker B; other site 1335307015369 D-loop; other site 1335307015370 H-loop/switch region; other site 1335307015371 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1335307015372 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 1335307015373 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307015374 Walker A/P-loop; other site 1335307015375 ATP binding site [chemical binding]; other site 1335307015376 Q-loop/lid; other site 1335307015377 ABC transporter signature motif; other site 1335307015378 Walker B; other site 1335307015379 D-loop; other site 1335307015380 H-loop/switch region; other site 1335307015381 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 1335307015382 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 1335307015383 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 1335307015384 active site 1335307015385 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1335307015386 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307015387 Walker A/P-loop; other site 1335307015388 ATP binding site [chemical binding]; other site 1335307015389 Q-loop/lid; other site 1335307015390 ABC transporter signature motif; other site 1335307015391 Walker B; other site 1335307015392 D-loop; other site 1335307015393 H-loop/switch region; other site 1335307015394 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 1335307015395 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1335307015396 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 1335307015397 dimer interface [polypeptide binding]; other site 1335307015398 conserved gate region; other site 1335307015399 ABC-ATPase subunit interface; other site 1335307015400 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1335307015401 pyrroline-5-carboxylate reductase; Region: PLN02688 1335307015402 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1335307015403 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1335307015404 catalytic residue [active] 1335307015405 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 1335307015406 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 1335307015407 Cysteine-rich domain; Region: CCG; pfam02754 1335307015408 Cysteine-rich domain; Region: CCG; pfam02754 1335307015409 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 1335307015410 FAD binding domain; Region: FAD_binding_4; pfam01565 1335307015411 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 1335307015412 FAD binding domain; Region: FAD_binding_4; pfam01565 1335307015413 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1335307015414 FAD binding domain; Region: FAD_binding_4; pfam01565 1335307015415 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 1335307015416 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 1335307015417 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 1335307015418 heme-binding site [chemical binding]; other site 1335307015419 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 1335307015420 FAD binding pocket [chemical binding]; other site 1335307015421 FAD binding motif [chemical binding]; other site 1335307015422 phosphate binding motif [ion binding]; other site 1335307015423 beta-alpha-beta structure motif; other site 1335307015424 NAD binding pocket [chemical binding]; other site 1335307015425 Heme binding pocket [chemical binding]; other site 1335307015426 Transposase domain (DUF772); Region: DUF772; pfam05598 1335307015427 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1335307015428 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1335307015429 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1335307015430 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1335307015431 protease TldD; Provisional; Region: tldD; PRK10735 1335307015432 nitrilase; Region: PLN02798 1335307015433 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1335307015434 putative active site [active] 1335307015435 catalytic triad [active] 1335307015436 dimer interface [polypeptide binding]; other site 1335307015437 TIGR02099 family protein; Region: TIGR02099 1335307015438 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1335307015439 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1335307015440 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1335307015441 metal binding triad; other site 1335307015442 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1335307015443 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1335307015444 metal binding triad; other site 1335307015445 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1335307015446 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1335307015447 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1335307015448 Walker A/P-loop; other site 1335307015449 ATP binding site [chemical binding]; other site 1335307015450 Q-loop/lid; other site 1335307015451 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1335307015452 ABC transporter signature motif; other site 1335307015453 Walker B; other site 1335307015454 D-loop; other site 1335307015455 H-loop/switch region; other site 1335307015456 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 1335307015457 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1335307015458 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1335307015459 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 1335307015460 ferrochelatase; Reviewed; Region: hemH; PRK00035 1335307015461 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 1335307015462 C-terminal domain interface [polypeptide binding]; other site 1335307015463 active site 1335307015464 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 1335307015465 active site 1335307015466 N-terminal domain interface [polypeptide binding]; other site 1335307015467 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 1335307015468 RNA binding surface [nucleotide binding]; other site 1335307015469 GrpE; Region: GrpE; pfam01025 1335307015470 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 1335307015471 dimer interface [polypeptide binding]; other site 1335307015472 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1335307015473 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 1335307015474 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1335307015475 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1335307015476 nucleotide binding site [chemical binding]; other site 1335307015477 chaperone protein DnaJ; Provisional; Region: PRK10767 1335307015478 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 1335307015479 HSP70 interaction site [polypeptide binding]; other site 1335307015480 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1335307015481 Zn binding sites [ion binding]; other site 1335307015482 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1335307015483 dimer interface [polypeptide binding]; other site 1335307015484 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1335307015485 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1335307015486 hypothetical protein; Provisional; Region: PRK07546 1335307015487 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1335307015488 substrate-cofactor binding pocket; other site 1335307015489 homodimer interface [polypeptide binding]; other site 1335307015490 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307015491 catalytic residue [active] 1335307015492 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 1335307015493 oligomerization interface [polypeptide binding]; other site 1335307015494 active site 1335307015495 metal binding site [ion binding]; metal-binding site 1335307015496 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 1335307015497 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 1335307015498 Substrate-binding site [chemical binding]; other site 1335307015499 Substrate specificity [chemical binding]; other site 1335307015500 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 1335307015501 catalytic center binding site [active] 1335307015502 ATP binding site [chemical binding]; other site 1335307015503 poly(A) polymerase; Region: pcnB; TIGR01942 1335307015504 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1335307015505 active site 1335307015506 NTP binding site [chemical binding]; other site 1335307015507 metal binding triad [ion binding]; metal-binding site 1335307015508 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1335307015509 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1335307015510 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1335307015511 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1335307015512 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1335307015513 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 1335307015514 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1335307015515 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 1335307015516 dimerization interface [polypeptide binding]; other site 1335307015517 putative ATP binding site [chemical binding]; other site 1335307015518 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1335307015519 SnoaL-like domain; Region: SnoaL_3; pfam13474 1335307015520 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1335307015521 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1335307015522 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1335307015523 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 1335307015524 ATP binding site [chemical binding]; other site 1335307015525 Mg2+ binding site [ion binding]; other site 1335307015526 G-X-G motif; other site 1335307015527 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 1335307015528 ATP binding site [chemical binding]; other site 1335307015529 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1335307015530 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1335307015531 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1335307015532 mechanosensitive channel MscS; Provisional; Region: PRK10334 1335307015533 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1335307015534 ergothioneine biosynthesis protein EgtC; Region: TIGR03442 1335307015535 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 1335307015536 putative active site [active] 1335307015537 putative dimer interface [polypeptide binding]; other site 1335307015538 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1335307015539 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1335307015540 Substrate binding site; other site 1335307015541 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1335307015542 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1335307015543 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1335307015544 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 1335307015545 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1335307015546 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1335307015547 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 1335307015548 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1335307015549 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1335307015550 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1335307015551 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1335307015552 Walker A/P-loop; other site 1335307015553 ATP binding site [chemical binding]; other site 1335307015554 Q-loop/lid; other site 1335307015555 ABC transporter signature motif; other site 1335307015556 Walker B; other site 1335307015557 D-loop; other site 1335307015558 H-loop/switch region; other site 1335307015559 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 1335307015560 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1335307015561 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 1335307015562 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 1335307015563 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1335307015564 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1335307015565 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 1335307015566 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307015567 NAD(P) binding site [chemical binding]; other site 1335307015568 active site 1335307015569 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1335307015570 NADP-binding site; other site 1335307015571 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1335307015572 homotetramer interface [polypeptide binding]; other site 1335307015573 substrate binding site [chemical binding]; other site 1335307015574 homodimer interface [polypeptide binding]; other site 1335307015575 active site 1335307015576 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 1335307015577 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1335307015578 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1335307015579 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 1335307015580 dimer interface [polypeptide binding]; other site 1335307015581 active site 1335307015582 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 1335307015583 WcbM_like is a subfamily of nucleotidyl transferases; Region: NTP_transferase_WcbM_like; cd06915 1335307015584 Substrate binding site; other site 1335307015585 Mg++ binding site; other site 1335307015586 metal-binding site 1335307015587 Mg++ binding site; other site 1335307015588 metal-binding site 1335307015589 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 1335307015590 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 1335307015591 active site 1335307015592 motif I; other site 1335307015593 motif II; other site 1335307015594 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 1335307015595 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1335307015596 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307015597 NAD(P) binding site [chemical binding]; other site 1335307015598 active site 1335307015599 Sulfatase; Region: Sulfatase; pfam00884 1335307015600 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 1335307015601 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 1335307015602 active site 1335307015603 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 1335307015604 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 1335307015605 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1335307015606 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1335307015607 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1335307015608 enoyl reductase of polyketide synthase; Region: enoyl_red; cd05195 1335307015609 Enoylreductase; Region: PKS_ER; smart00829 1335307015610 NAD(P) binding site [chemical binding]; other site 1335307015611 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 1335307015612 KR domain; Region: KR; pfam08659 1335307015613 putative NADP binding site [chemical binding]; other site 1335307015614 active site 1335307015615 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1335307015616 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: PRK13187 1335307015617 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1335307015618 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1335307015619 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 1335307015620 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1335307015621 catalytic residue [active] 1335307015622 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1335307015623 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 1335307015624 active site 1335307015625 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1335307015626 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1335307015627 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307015628 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307015629 CoA-binding domain; Region: CoA_binding_3; pfam13727 1335307015630 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1335307015631 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1335307015632 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 1335307015633 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1335307015634 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1335307015635 active site 1335307015636 tyrosine kinase; Provisional; Region: PRK11519 1335307015637 Chain length determinant protein; Region: Wzz; pfam02706 1335307015638 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1335307015639 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 1335307015640 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1335307015641 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 1335307015642 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 1335307015643 trimer interface [polypeptide binding]; other site 1335307015644 active site 1335307015645 substrate binding site [chemical binding]; other site 1335307015646 CoA binding site [chemical binding]; other site 1335307015647 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1335307015648 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 1335307015649 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1335307015650 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 1335307015651 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK12457 1335307015652 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1335307015653 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1335307015654 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 1335307015655 active site 1335307015656 motif I; other site 1335307015657 motif II; other site 1335307015658 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1335307015659 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 1335307015660 putative active site [active] 1335307015661 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 1335307015662 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1335307015663 active site 1335307015664 tetramer interface; other site 1335307015665 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 1335307015666 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1335307015667 Tetratricopeptide repeat; Region: TPR_6; pfam13174 1335307015668 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1335307015669 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1335307015670 ligand binding site [chemical binding]; other site 1335307015671 translocation protein TolB; Provisional; Region: tolB; PRK02889 1335307015672 TolB amino-terminal domain; Region: TolB_N; pfam04052 1335307015673 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1335307015674 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1335307015675 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1335307015676 TolA protein; Region: tolA_full; TIGR02794 1335307015677 TonB C terminal; Region: TonB_2; pfam13103 1335307015678 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1335307015679 TolR protein; Region: tolR; TIGR02801 1335307015680 TolQ protein; Region: tolQ; TIGR02796 1335307015681 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 1335307015682 active site 1335307015683 malonic semialdehyde reductase; Provisional; Region: PRK10538 1335307015684 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1335307015685 putative NAD(P) binding site [chemical binding]; other site 1335307015686 homodimer interface [polypeptide binding]; other site 1335307015687 homotetramer interface [polypeptide binding]; other site 1335307015688 active site 1335307015689 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1335307015690 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 1335307015691 dimer interface [polypeptide binding]; other site 1335307015692 active site 1335307015693 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1335307015694 folate binding site [chemical binding]; other site 1335307015695 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1335307015696 ATP cone domain; Region: ATP-cone; pfam03477 1335307015697 Type II transport protein GspH; Region: GspH; pfam12019 1335307015698 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1335307015699 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 1335307015700 Predicted membrane protein [Function unknown]; Region: COG5393 1335307015701 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1335307015702 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1335307015703 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 1335307015704 dimer interface [polypeptide binding]; other site 1335307015705 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1335307015706 catalytic triad [active] 1335307015707 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 1335307015708 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1335307015709 FAD binding site [chemical binding]; other site 1335307015710 substrate binding pocket [chemical binding]; other site 1335307015711 catalytic base [active] 1335307015712 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1335307015713 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1335307015714 Bacterial transcriptional regulator; Region: IclR; pfam01614 1335307015715 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1335307015716 EAL domain; Region: EAL; pfam00563 1335307015717 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1335307015718 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 1335307015719 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1335307015720 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 1335307015721 benzoate transport; Region: 2A0115; TIGR00895 1335307015722 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 1335307015723 putative substrate translocation pore; other site 1335307015724 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 1335307015725 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 1335307015726 fumarylacetoacetase; Region: PLN02856 1335307015727 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 1335307015728 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1335307015729 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 1335307015730 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1335307015731 putative substrate translocation pore; other site 1335307015732 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1335307015733 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 1335307015734 putative substrate translocation pore; other site 1335307015735 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 1335307015736 putative FMN binding site [chemical binding]; other site 1335307015737 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1335307015738 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 1335307015739 putative ligand binding site [chemical binding]; other site 1335307015740 putative NAD binding site [chemical binding]; other site 1335307015741 catalytic site [active] 1335307015742 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307015743 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307015744 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 1335307015745 putative effector binding pocket; other site 1335307015746 dimerization interface [polypeptide binding]; other site 1335307015747 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 1335307015748 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1335307015749 catalytic residue [active] 1335307015750 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1335307015751 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307015752 EamA-like transporter family; Region: EamA; pfam00892 1335307015753 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1335307015754 EamA-like transporter family; Region: EamA; pfam00892 1335307015755 major facilitator superfamily transporter; Provisional; Region: PRK05122 1335307015756 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 1335307015757 putative substrate translocation pore; other site 1335307015758 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 1335307015759 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 1335307015760 catalytic loop [active] 1335307015761 iron binding site [ion binding]; other site 1335307015762 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1335307015763 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1335307015764 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 1335307015765 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1335307015766 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1335307015767 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1335307015768 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1335307015769 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 1335307015770 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1335307015771 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1335307015772 N-terminal plug; other site 1335307015773 ligand-binding site [chemical binding]; other site 1335307015774 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1335307015775 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1335307015776 Walker A/P-loop; other site 1335307015777 ATP binding site [chemical binding]; other site 1335307015778 Q-loop/lid; other site 1335307015779 ABC transporter signature motif; other site 1335307015780 Walker B; other site 1335307015781 D-loop; other site 1335307015782 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 1335307015783 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 1335307015784 putative ligand binding residues [chemical binding]; other site 1335307015785 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1335307015786 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 1335307015787 dimer interface [polypeptide binding]; other site 1335307015788 putative PBP binding regions; other site 1335307015789 ABC-ATPase subunit interface; other site 1335307015790 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307015791 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307015792 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 1335307015793 dimerization interface [polypeptide binding]; other site 1335307015794 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 1335307015795 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1335307015796 putative catalytic residue [active] 1335307015797 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1335307015798 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1335307015799 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 1335307015800 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1335307015801 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 1335307015802 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 1335307015803 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1335307015804 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1335307015805 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 1335307015806 putative substrate translocation pore; other site 1335307015807 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1335307015808 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 1335307015809 putative active site [active] 1335307015810 catalytic site [active] 1335307015811 putative metal binding site [ion binding]; other site 1335307015812 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1335307015813 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1335307015814 Coenzyme A binding pocket [chemical binding]; other site 1335307015815 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1335307015816 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 1335307015817 non-specific DNA binding site [nucleotide binding]; other site 1335307015818 salt bridge; other site 1335307015819 sequence-specific DNA binding site [nucleotide binding]; other site 1335307015820 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1335307015821 Predicted transcriptional regulators [Transcription]; Region: COG1733 1335307015822 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 1335307015823 dimerization interface [polypeptide binding]; other site 1335307015824 putative DNA binding site [nucleotide binding]; other site 1335307015825 putative Zn2+ binding site [ion binding]; other site 1335307015826 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 1335307015827 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 1335307015828 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1335307015829 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 1335307015830 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1335307015831 putative NAD(P) binding site [chemical binding]; other site 1335307015832 Predicted transcriptional regulators [Transcription]; Region: COG1733 1335307015833 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1335307015834 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 1335307015835 oligomerisation interface [polypeptide binding]; other site 1335307015836 mobile loop; other site 1335307015837 roof hairpin; other site 1335307015838 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1335307015839 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 1335307015840 ring oligomerisation interface [polypeptide binding]; other site 1335307015841 ATP/Mg binding site [chemical binding]; other site 1335307015842 stacking interactions; other site 1335307015843 hinge regions; other site 1335307015844 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 1335307015845 dimer interface [polypeptide binding]; other site 1335307015846 substrate binding site [chemical binding]; other site 1335307015847 ATP binding site [chemical binding]; other site 1335307015848 Rubredoxin [Energy production and conversion]; Region: COG1773 1335307015849 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 1335307015850 iron binding site [ion binding]; other site 1335307015851 hypothetical protein; Validated; Region: PRK00228 1335307015852 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1335307015853 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1335307015854 active site 1335307015855 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1335307015856 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1335307015857 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1335307015858 dihydroorotase; Provisional; Region: PRK07627 1335307015859 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 1335307015860 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 1335307015861 active site 1335307015862 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1335307015863 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1335307015864 putative acyl-acceptor binding pocket; other site 1335307015865 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1335307015866 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1335307015867 active site 1335307015868 metal binding site [ion binding]; metal-binding site 1335307015869 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1335307015870 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1335307015871 NAD binding site [chemical binding]; other site 1335307015872 substrate binding site [chemical binding]; other site 1335307015873 homodimer interface [polypeptide binding]; other site 1335307015874 active site 1335307015875 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1335307015876 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1335307015877 substrate binding site; other site 1335307015878 tetramer interface; other site 1335307015879 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 1335307015880 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1335307015881 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1335307015882 NADP binding site [chemical binding]; other site 1335307015883 active site 1335307015884 putative substrate binding site [chemical binding]; other site 1335307015885 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1335307015886 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1335307015887 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1335307015888 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1335307015889 Walker A/P-loop; other site 1335307015890 ATP binding site [chemical binding]; other site 1335307015891 Q-loop/lid; other site 1335307015892 ABC transporter signature motif; other site 1335307015893 Walker B; other site 1335307015894 D-loop; other site 1335307015895 H-loop/switch region; other site 1335307015896 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 1335307015897 putative carbohydrate binding site [chemical binding]; other site 1335307015898 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1335307015899 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1335307015900 extended (e) SDRs; Region: SDR_e; cd08946 1335307015901 NAD(P) binding site [chemical binding]; other site 1335307015902 active site 1335307015903 substrate binding site [chemical binding]; other site 1335307015904 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1335307015905 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1335307015906 Probable Catalytic site; other site 1335307015907 metal-binding site 1335307015908 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1335307015909 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1335307015910 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1335307015911 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1335307015912 active site 1335307015913 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1335307015914 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1335307015915 Probable Catalytic site; other site 1335307015916 metal-binding site 1335307015917 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1335307015918 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1335307015919 active site 1335307015920 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1335307015921 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1335307015922 Probable Catalytic site; other site 1335307015923 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 1335307015924 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1335307015925 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 1335307015926 putative NAD(P) binding site [chemical binding]; other site 1335307015927 active site 1335307015928 putative substrate binding site [chemical binding]; other site 1335307015929 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1335307015930 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 1335307015931 Mg++ binding site [ion binding]; other site 1335307015932 putative catalytic motif [active] 1335307015933 putative substrate binding site [chemical binding]; other site 1335307015934 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1335307015935 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1335307015936 NAD(P) binding site [chemical binding]; other site 1335307015937 homodimer interface [polypeptide binding]; other site 1335307015938 substrate binding site [chemical binding]; other site 1335307015939 active site 1335307015940 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 1335307015941 Mg++ binding site [ion binding]; other site 1335307015942 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1335307015943 putative catalytic motif [active] 1335307015944 UDP-glucose 4-epimerase; Region: PLN02240 1335307015945 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1335307015946 NAD binding site [chemical binding]; other site 1335307015947 homodimer interface [polypeptide binding]; other site 1335307015948 active site 1335307015949 substrate binding site [chemical binding]; other site 1335307015950 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 1335307015951 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1335307015952 putative ADP-binding pocket [chemical binding]; other site 1335307015953 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1335307015954 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 1335307015955 active site 1335307015956 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1335307015957 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1335307015958 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1335307015959 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 1335307015960 active site 1335307015961 substrate binding site [chemical binding]; other site 1335307015962 metal binding site [ion binding]; metal-binding site 1335307015963 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1335307015964 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1335307015965 putative active site [active] 1335307015966 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 1335307015967 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1335307015968 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1335307015969 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 1335307015970 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 1335307015971 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1335307015972 UreF; Region: UreF; pfam01730 1335307015973 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 1335307015974 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 1335307015975 dimer interface [polypeptide binding]; other site 1335307015976 catalytic residues [active] 1335307015977 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1335307015978 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 1335307015979 subunit interactions [polypeptide binding]; other site 1335307015980 active site 1335307015981 flap region; other site 1335307015982 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 1335307015983 gamma-beta subunit interface [polypeptide binding]; other site 1335307015984 alpha-beta subunit interface [polypeptide binding]; other site 1335307015985 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 1335307015986 alpha-gamma subunit interface [polypeptide binding]; other site 1335307015987 beta-gamma subunit interface [polypeptide binding]; other site 1335307015988 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 1335307015989 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1335307015990 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1335307015991 Walker A/P-loop; other site 1335307015992 ATP binding site [chemical binding]; other site 1335307015993 Q-loop/lid; other site 1335307015994 ABC transporter signature motif; other site 1335307015995 Walker B; other site 1335307015996 D-loop; other site 1335307015997 H-loop/switch region; other site 1335307015998 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 1335307015999 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1335307016000 Walker A/P-loop; other site 1335307016001 ATP binding site [chemical binding]; other site 1335307016002 Q-loop/lid; other site 1335307016003 ABC transporter signature motif; other site 1335307016004 Walker B; other site 1335307016005 D-loop; other site 1335307016006 H-loop/switch region; other site 1335307016007 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1335307016008 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 1335307016009 TM-ABC transporter signature motif; other site 1335307016010 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 1335307016011 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1335307016012 TM-ABC transporter signature motif; other site 1335307016013 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1335307016014 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 1335307016015 putative ligand binding site [chemical binding]; other site 1335307016016 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1335307016017 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 1335307016018 inhibitor-cofactor binding pocket; inhibition site 1335307016019 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307016020 catalytic residue [active] 1335307016021 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 1335307016022 active site residue [active] 1335307016023 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1335307016024 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 1335307016025 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 1335307016026 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1335307016027 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 1335307016028 FeS/SAM binding site; other site 1335307016029 HemN C-terminal domain; Region: HemN_C; pfam06969 1335307016030 Flagellin N-methylase; Region: FliB; pfam03692 1335307016031 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 1335307016032 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1335307016033 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 1335307016034 S-adenosylmethionine binding site [chemical binding]; other site 1335307016035 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 1335307016036 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1335307016037 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 1335307016038 S-adenosylmethionine binding site [chemical binding]; other site 1335307016039 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 1335307016040 active site 1335307016041 catalytic triad [active] 1335307016042 calcium binding site [ion binding]; other site 1335307016043 chromosome condensation membrane protein; Provisional; Region: PRK14196 1335307016044 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 1335307016045 YGGT family; Region: YGGT; pfam02325 1335307016046 YGGT family; Region: YGGT; pfam02325 1335307016047 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1335307016048 Rossmann-like domain; Region: Rossmann-like; pfam10727 1335307016049 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 1335307016050 serine racemase; Region: PLN02970 1335307016051 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 1335307016052 tetramer interface [polypeptide binding]; other site 1335307016053 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307016054 catalytic residue [active] 1335307016055 LysE type translocator; Region: LysE; cl00565 1335307016056 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1335307016057 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1335307016058 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 1335307016059 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1335307016060 catalytic residue [active] 1335307016061 aminotransferase; Validated; Region: PRK07337 1335307016062 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 1335307016063 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307016064 homodimer interface [polypeptide binding]; other site 1335307016065 catalytic residue [active] 1335307016066 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1335307016067 putative RNA binding site [nucleotide binding]; other site 1335307016068 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 1335307016069 homopentamer interface [polypeptide binding]; other site 1335307016070 active site 1335307016071 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 1335307016072 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1335307016073 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1335307016074 dimerization interface [polypeptide binding]; other site 1335307016075 active site 1335307016076 Nuclease-related domain; Region: NERD; pfam08378 1335307016077 SEC-C motif; Region: SEC-C; pfam02810 1335307016078 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1335307016079 Lumazine binding domain; Region: Lum_binding; pfam00677 1335307016080 Lumazine binding domain; Region: Lum_binding; pfam00677 1335307016081 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1335307016082 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 1335307016083 catalytic motif [active] 1335307016084 Zn binding site [ion binding]; other site 1335307016085 RibD C-terminal domain; Region: RibD_C; cl17279 1335307016086 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1335307016087 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 1335307016088 inhibitor-cofactor binding pocket; inhibition site 1335307016089 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307016090 catalytic residue [active] 1335307016091 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 1335307016092 putative substrate translocation pore; other site 1335307016093 Protein of unknown function (DUF3088); Region: DUF3088; pfam11287 1335307016094 D-cysteine desulfhydrase; Validated; Region: PRK03910 1335307016095 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 1335307016096 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1335307016097 catalytic residue [active] 1335307016098 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1335307016099 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1335307016100 Walker A/P-loop; other site 1335307016101 ATP binding site [chemical binding]; other site 1335307016102 Q-loop/lid; other site 1335307016103 ABC transporter signature motif; other site 1335307016104 Walker B; other site 1335307016105 D-loop; other site 1335307016106 H-loop/switch region; other site 1335307016107 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1335307016108 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 1335307016109 dimer interface [polypeptide binding]; other site 1335307016110 conserved gate region; other site 1335307016111 putative PBP binding loops; other site 1335307016112 ABC-ATPase subunit interface; other site 1335307016113 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1335307016114 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 1335307016115 substrate binding pocket [chemical binding]; other site 1335307016116 membrane-bound complex binding site; other site 1335307016117 hinge residues; other site 1335307016118 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional; Region: PRK14101 1335307016119 glucokinase; Provisional; Region: glk; PRK00292 1335307016120 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1335307016121 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 1335307016122 putative active site [active] 1335307016123 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1335307016124 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 1335307016125 putative active site [active] 1335307016126 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1335307016127 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1335307016128 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1335307016129 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1335307016130 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1335307016131 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 1335307016132 dimer interface [polypeptide binding]; other site 1335307016133 conserved gate region; other site 1335307016134 putative PBP binding loops; other site 1335307016135 ABC-ATPase subunit interface; other site 1335307016136 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1335307016137 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 1335307016138 dimer interface [polypeptide binding]; other site 1335307016139 conserved gate region; other site 1335307016140 putative PBP binding loops; other site 1335307016141 ABC-ATPase subunit interface; other site 1335307016142 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1335307016143 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1335307016144 Walker A/P-loop; other site 1335307016145 ATP binding site [chemical binding]; other site 1335307016146 Q-loop/lid; other site 1335307016147 ABC transporter signature motif; other site 1335307016148 Walker B; other site 1335307016149 D-loop; other site 1335307016150 H-loop/switch region; other site 1335307016151 Predicted membrane protein [Function unknown]; Region: COG2860 1335307016152 UPF0126 domain; Region: UPF0126; pfam03458 1335307016153 UPF0126 domain; Region: UPF0126; pfam03458 1335307016154 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1335307016155 Smr domain; Region: Smr; pfam01713 1335307016156 thioredoxin reductase; Provisional; Region: PRK10262 1335307016157 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1335307016158 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1335307016159 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1335307016160 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1335307016161 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1335307016162 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1335307016163 recombination factor protein RarA; Reviewed; Region: PRK13342 1335307016164 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 1335307016165 Walker A motif; other site 1335307016166 ATP binding site [chemical binding]; other site 1335307016167 Walker B motif; other site 1335307016168 arginine finger; other site 1335307016169 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1335307016170 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 1335307016171 seryl-tRNA synthetase; Provisional; Region: PRK05431 1335307016172 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1335307016173 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 1335307016174 dimer interface [polypeptide binding]; other site 1335307016175 active site 1335307016176 motif 1; other site 1335307016177 motif 2; other site 1335307016178 motif 3; other site 1335307016179 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1335307016180 Coenzyme A binding pocket [chemical binding]; other site 1335307016181 septum formation inhibitor; Reviewed; Region: PRK01973 1335307016182 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 1335307016183 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1335307016184 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1335307016185 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 1335307016186 Switch I; other site 1335307016187 Switch II; other site 1335307016188 cell division topological specificity factor MinE; Provisional; Region: PRK13989 1335307016189 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1335307016190 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 1335307016191 putative ion selectivity filter; other site 1335307016192 putative pore gating glutamate residue; other site 1335307016193 putative H+/Cl- coupling transport residue; other site 1335307016194 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1335307016195 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1335307016196 putative active site [active] 1335307016197 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 1335307016198 metabolite-proton symporter; Region: 2A0106; TIGR00883 1335307016199 putative substrate translocation pore; other site 1335307016200 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 1335307016201 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 1335307016202 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 1335307016203 FeS/SAM binding site; other site 1335307016204 HemN C-terminal domain; Region: HemN_C; pfam06969 1335307016205 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 1335307016206 active site 1335307016207 dimerization interface [polypeptide binding]; other site 1335307016208 ribonuclease PH; Reviewed; Region: rph; PRK00173 1335307016209 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1335307016210 hexamer interface [polypeptide binding]; other site 1335307016211 active site 1335307016212 hypothetical protein; Provisional; Region: PRK11820 1335307016213 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1335307016214 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1335307016215 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1335307016216 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 1335307016217 catalytic site [active] 1335307016218 G-X2-G-X-G-K; other site 1335307016219 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1335307016220 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1335307016221 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1335307016222 Zn2+ binding site [ion binding]; other site 1335307016223 Mg2+ binding site [ion binding]; other site 1335307016224 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1335307016225 synthetase active site [active] 1335307016226 NTP binding site [chemical binding]; other site 1335307016227 metal binding site [ion binding]; metal-binding site 1335307016228 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 1335307016229 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1335307016230 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1335307016231 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1335307016232 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1335307016233 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307016234 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307016235 trimer interface [polypeptide binding]; other site 1335307016236 eyelet of channel; other site 1335307016237 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 1335307016238 DNA-binding site [nucleotide binding]; DNA binding site 1335307016239 RNA-binding motif; other site 1335307016240 exonuclease, DNA polymerase III, epsilon subunit family; Region: dnaq; TIGR00573 1335307016241 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1335307016242 active site 1335307016243 catalytic site [active] 1335307016244 substrate binding site [chemical binding]; other site 1335307016245 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1335307016246 GIY-YIG motif/motif A; other site 1335307016247 active site 1335307016248 catalytic site [active] 1335307016249 putative DNA binding site [nucleotide binding]; other site 1335307016250 metal binding site [ion binding]; metal-binding site 1335307016251 chorismate mutase; Provisional; Region: PRK09269 1335307016252 Chorismate mutase type II; Region: CM_2; cl00693 1335307016253 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1335307016254 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1335307016255 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1335307016256 N-terminal plug; other site 1335307016257 ligand-binding site [chemical binding]; other site 1335307016258 BNR repeat-like domain; Region: BNR_2; pfam13088 1335307016259 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 1335307016260 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1335307016261 catalytic residues [active] 1335307016262 fructose-1,6-bisphosphatase family protein; Region: PLN02628 1335307016263 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 1335307016264 AMP binding site [chemical binding]; other site 1335307016265 metal binding site [ion binding]; metal-binding site 1335307016266 active site 1335307016267 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1335307016268 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307016269 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 1335307016270 putative dimerization interface [polypeptide binding]; other site 1335307016271 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1335307016272 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 1335307016273 THF binding site; other site 1335307016274 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 1335307016275 substrate binding site [chemical binding]; other site 1335307016276 THF binding site; other site 1335307016277 zinc-binding site [ion binding]; other site 1335307016278 aminopeptidase N; Provisional; Region: pepN; PRK14015 1335307016279 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1335307016280 active site 1335307016281 Zn binding site [ion binding]; other site 1335307016282 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1335307016283 Predicted membrane protein [Function unknown]; Region: COG2119 1335307016284 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1335307016285 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1335307016286 guanine deaminase; Provisional; Region: PRK09228 1335307016287 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 1335307016288 active site 1335307016289 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1335307016290 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1335307016291 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 1335307016292 active site 1335307016293 purine riboside binding site [chemical binding]; other site 1335307016294 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1335307016295 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 1335307016296 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1335307016297 disulfide bond formation protein B; Provisional; Region: PRK02110 1335307016298 amidase; Provisional; Region: PRK07056 1335307016299 Amidase; Region: Amidase; cl11426 1335307016300 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1335307016301 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1335307016302 catalytic triad [active] 1335307016303 citrate-proton symporter; Provisional; Region: PRK15075 1335307016304 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 1335307016305 putative substrate translocation pore; other site 1335307016306 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 1335307016307 TPR repeat; Region: TPR_11; pfam13414 1335307016308 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 1335307016309 binding surface 1335307016310 TPR motif; other site 1335307016311 TPR repeat; Region: TPR_11; pfam13414 1335307016312 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 1335307016313 TPR repeat; Region: TPR_11; pfam13414 1335307016314 TPR motif; other site 1335307016315 binding surface 1335307016316 TPR repeat; Region: TPR_11; pfam13414 1335307016317 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 1335307016318 binding surface 1335307016319 TPR motif; other site 1335307016320 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 1335307016321 hypothetical protein; Provisional; Region: PRK06184 1335307016322 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1335307016323 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 1335307016324 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 1335307016325 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 1335307016326 catalytic loop [active] 1335307016327 iron binding site [ion binding]; other site 1335307016328 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 1335307016329 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 1335307016330 [4Fe-4S] binding site [ion binding]; other site 1335307016331 molybdopterin cofactor binding site; other site 1335307016332 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 1335307016333 molybdopterin cofactor binding site; other site 1335307016334 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 1335307016335 putative dimer interface [polypeptide binding]; other site 1335307016336 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1335307016337 SLBB domain; Region: SLBB; pfam10531 1335307016338 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1335307016339 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 1335307016340 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 1335307016341 putative dimer interface [polypeptide binding]; other site 1335307016342 [2Fe-2S] cluster binding site [ion binding]; other site 1335307016343 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 1335307016344 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1335307016345 PBP superfamily domain; Region: PBP_like; pfam12727 1335307016346 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 1335307016347 S-adenosylmethionine binding site [chemical binding]; other site 1335307016348 phosphoglycolate phosphatase; Provisional; Region: PRK13226 1335307016349 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 1335307016350 motif II; other site 1335307016351 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1335307016352 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 1335307016353 S-adenosylmethionine binding site [chemical binding]; other site 1335307016354 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1335307016355 ligand binding site [chemical binding]; other site 1335307016356 DNA gyrase subunit A; Validated; Region: PRK05560 1335307016357 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 1335307016358 CAP-like domain; other site 1335307016359 active site 1335307016360 primary dimer interface [polypeptide binding]; other site 1335307016361 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1335307016362 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1335307016363 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1335307016364 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1335307016365 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1335307016366 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1335307016367 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 1335307016368 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 1335307016369 homodimer interface [polypeptide binding]; other site 1335307016370 substrate-cofactor binding pocket; other site 1335307016371 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307016372 catalytic residue [active] 1335307016373 Chorismate mutase type II; Region: CM_2; smart00830 1335307016374 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1335307016375 Prephenate dehydratase; Region: PDT; pfam00800 1335307016376 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 1335307016377 putative L-Phe binding site [chemical binding]; other site 1335307016378 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 1335307016379 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 1335307016380 hinge; other site 1335307016381 active site 1335307016382 cytidylate kinase; Provisional; Region: cmk; PRK00023 1335307016383 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 1335307016384 CMP-binding site; other site 1335307016385 The sites determining sugar specificity; other site 1335307016386 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1335307016387 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 1335307016388 RNA binding site [nucleotide binding]; other site 1335307016389 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 1335307016390 RNA binding site [nucleotide binding]; other site 1335307016391 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 1335307016392 RNA binding site [nucleotide binding]; other site 1335307016393 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 1335307016394 RNA binding site [nucleotide binding]; other site 1335307016395 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 1335307016396 RNA binding site [nucleotide binding]; other site 1335307016397 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 1335307016398 RNA binding site [nucleotide binding]; other site 1335307016399 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 1335307016400 IHF dimer interface [polypeptide binding]; other site 1335307016401 IHF - DNA interface [nucleotide binding]; other site 1335307016402 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 1335307016403 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1335307016404 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 1335307016405 binding surface 1335307016406 TPR motif; other site 1335307016407 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1335307016408 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1335307016409 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1335307016410 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1335307016411 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 1335307016412 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1335307016413 putative ribose interaction site [chemical binding]; other site 1335307016414 putative ADP binding site [chemical binding]; other site 1335307016415 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 1335307016416 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 1335307016417 NADP binding site [chemical binding]; other site 1335307016418 homopentamer interface [polypeptide binding]; other site 1335307016419 substrate binding site [chemical binding]; other site 1335307016420 active site 1335307016421 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 1335307016422 cysteine synthase B; Region: cysM; TIGR01138 1335307016423 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 1335307016424 dimer interface [polypeptide binding]; other site 1335307016425 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307016426 catalytic residue [active] 1335307016427 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1335307016428 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 1335307016429 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1335307016430 catalytic residue [active] 1335307016431 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1335307016432 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 1335307016433 putative active site [active] 1335307016434 Zn binding site [ion binding]; other site 1335307016435 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1335307016436 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1335307016437 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1335307016438 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1335307016439 Walker A/P-loop; other site 1335307016440 ATP binding site [chemical binding]; other site 1335307016441 Q-loop/lid; other site 1335307016442 ABC transporter signature motif; other site 1335307016443 Walker B; other site 1335307016444 D-loop; other site 1335307016445 H-loop/switch region; other site 1335307016446 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 1335307016447 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 1335307016448 dimer interface [polypeptide binding]; other site 1335307016449 conserved gate region; other site 1335307016450 ABC-ATPase subunit interface; other site 1335307016451 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1335307016452 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1335307016453 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 1335307016454 Ligand binding site [chemical binding]; other site 1335307016455 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1335307016456 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1335307016457 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 1335307016458 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1335307016459 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1335307016460 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1335307016461 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1335307016462 active site 1335307016463 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1335307016464 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1335307016465 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1335307016466 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1335307016467 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1335307016468 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1335307016469 AsnC family; Region: AsnC_trans_reg; pfam01037 1335307016470 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1335307016471 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 1335307016472 FeS/SAM binding site; other site 1335307016473 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 1335307016474 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1335307016475 16S rRNA processing protein RimM; Region: 16S_RimM; TIGR02273 1335307016476 RimM N-terminal domain; Region: RimM; pfam01782 1335307016477 PRC-barrel domain; Region: PRC; pfam05239 1335307016478 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1335307016479 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1335307016480 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1335307016481 Coenzyme A binding pocket [chemical binding]; other site 1335307016482 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 1335307016483 putative active site [active] 1335307016484 putative CoA binding site [chemical binding]; other site 1335307016485 nudix motif; other site 1335307016486 metal binding site [ion binding]; metal-binding site 1335307016487 CobD/CbiB family protein; Provisional; Region: PRK07630 1335307016488 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1335307016489 GTPase RsgA; Reviewed; Region: PRK00098 1335307016490 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 1335307016491 RNA binding site [nucleotide binding]; other site 1335307016492 homodimer interface [polypeptide binding]; other site 1335307016493 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1335307016494 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1335307016495 GTP/Mg2+ binding site [chemical binding]; other site 1335307016496 G4 box; other site 1335307016497 G5 box; other site 1335307016498 G1 box; other site 1335307016499 Switch I region; other site 1335307016500 G2 box; other site 1335307016501 G3 box; other site 1335307016502 Switch II region; other site 1335307016503 Peptidase family M48; Region: Peptidase_M48; pfam01435 1335307016504 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1335307016505 catalytic site [active] 1335307016506 putative active site [active] 1335307016507 putative substrate binding site [chemical binding]; other site 1335307016508 dimer interface [polypeptide binding]; other site 1335307016509 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 1335307016510 MPT binding site; other site 1335307016511 trimer interface [polypeptide binding]; other site 1335307016512 hypothetical protein; Provisional; Region: PRK05255 1335307016513 peptidase PmbA; Provisional; Region: PRK11040 1335307016514 Transposase domain (DUF772); Region: DUF772; pfam05598 1335307016515 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1335307016516 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1335307016517 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1335307016518 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 1335307016519 folate binding site [chemical binding]; other site 1335307016520 NADP+ binding site [chemical binding]; other site 1335307016521 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1335307016522 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 1335307016523 Walker A motif; other site 1335307016524 ATP binding site [chemical binding]; other site 1335307016525 Walker B motif; other site 1335307016526 arginine finger; other site 1335307016527 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1335307016528 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1335307016529 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 1335307016530 Walker A motif; other site 1335307016531 ATP binding site [chemical binding]; other site 1335307016532 Walker B motif; other site 1335307016533 arginine finger; other site 1335307016534 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1335307016535 thymidylate synthase; Provisional; Region: thyA; PRK13821 1335307016536 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 1335307016537 dimerization interface [polypeptide binding]; other site 1335307016538 active site 1335307016539 FecR protein; Region: FecR; pfam04773 1335307016540 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 1335307016541 dimerization interface [polypeptide binding]; other site 1335307016542 putative DNA binding site [nucleotide binding]; other site 1335307016543 putative Zn2+ binding site [ion binding]; other site 1335307016544 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 1335307016545 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1335307016546 Class II fumarases; Region: Fumarase_classII; cd01362 1335307016547 active site 1335307016548 tetramer interface [polypeptide binding]; other site 1335307016549 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1335307016550 multidrug efflux protein; Reviewed; Region: PRK01766 1335307016551 cation binding site [ion binding]; other site 1335307016552 S4 domain; Region: S4_2; pfam13275 1335307016553 Protein of unknown function (DUF4088); Region: DUF4088; pfam13317 1335307016554 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 1335307016555 CreA protein; Region: CreA; pfam05981 1335307016556 Ferredoxin [Energy production and conversion]; Region: COG1146 1335307016557 4Fe-4S binding domain; Region: Fer4; cl02805 1335307016558 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1335307016559 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 1335307016560 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 1335307016561 active site 1335307016562 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 1335307016563 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1335307016564 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1335307016565 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1335307016566 dimerization interface [polypeptide binding]; other site 1335307016567 ligand binding site [chemical binding]; other site 1335307016568 NADP binding site [chemical binding]; other site 1335307016569 catalytic site [active] 1335307016570 RmuC family; Region: RmuC; pfam02646 1335307016571 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1335307016572 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1335307016573 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 1335307016574 dimer interface [polypeptide binding]; other site 1335307016575 putative functional site; other site 1335307016576 putative MPT binding site; other site 1335307016577 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1335307016578 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1335307016579 GTP binding site; other site 1335307016580 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1335307016581 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 1335307016582 FeS/SAM binding site; other site 1335307016583 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1335307016584 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 1335307016585 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 1335307016586 homodimer interface [polypeptide binding]; other site 1335307016587 oligonucleotide binding site [chemical binding]; other site 1335307016588 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1335307016589 S4 domain; Region: S4; pfam01479 1335307016590 RNA binding surface [nucleotide binding]; other site 1335307016591 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1335307016592 active site 1335307016593 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1335307016594 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 1335307016595 motif II; other site 1335307016596 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 1335307016597 iron-sulfur cluster [ion binding]; other site 1335307016598 [2Fe-2S] cluster binding site [ion binding]; other site 1335307016599 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1335307016600 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1335307016601 tandem repeat interface [polypeptide binding]; other site 1335307016602 oligomer interface [polypeptide binding]; other site 1335307016603 active site residues [active] 1335307016604 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 1335307016605 putative SAM binding site [chemical binding]; other site 1335307016606 homodimer interface [polypeptide binding]; other site 1335307016607 Maf-like protein; Region: Maf; pfam02545 1335307016608 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 1335307016609 active site 1335307016610 dimer interface [polypeptide binding]; other site 1335307016611 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 1335307016612 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1335307016613 putative phosphate acyltransferase; Provisional; Region: PRK05331 1335307016614 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1335307016615 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 1335307016616 dimer interface [polypeptide binding]; other site 1335307016617 active site 1335307016618 CoA binding pocket [chemical binding]; other site 1335307016619 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1335307016620 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1335307016621 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1335307016622 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1335307016623 NAD(P) binding site [chemical binding]; other site 1335307016624 homotetramer interface [polypeptide binding]; other site 1335307016625 homodimer interface [polypeptide binding]; other site 1335307016626 active site 1335307016627 acyl carrier protein; Provisional; Region: acpP; PRK00982 1335307016628 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1335307016629 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 1335307016630 dimer interface [polypeptide binding]; other site 1335307016631 active site 1335307016632 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 1335307016633 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1335307016634 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 1335307016635 DNA binding residues [nucleotide binding] 1335307016636 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1335307016637 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 1335307016638 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1335307016639 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1335307016640 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1335307016641 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 1335307016642 protein binding site [polypeptide binding]; other site 1335307016643 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 1335307016644 protein binding site [polypeptide binding]; other site 1335307016645 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 1335307016646 GTP-binding protein LepA; Provisional; Region: PRK05433 1335307016647 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1335307016648 G1 box; other site 1335307016649 putative GEF interaction site [polypeptide binding]; other site 1335307016650 GTP/Mg2+ binding site [chemical binding]; other site 1335307016651 Switch I region; other site 1335307016652 G2 box; other site 1335307016653 G3 box; other site 1335307016654 Switch II region; other site 1335307016655 G4 box; other site 1335307016656 G5 box; other site 1335307016657 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 1335307016658 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 1335307016659 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1335307016660 signal peptidase I; Provisional; Region: PRK10861 1335307016661 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 1335307016662 Catalytic site [active] 1335307016663 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 1335307016664 ribonuclease III; Provisional; Region: PRK14718 1335307016665 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 1335307016666 dimerization interface [polypeptide binding]; other site 1335307016667 active site 1335307016668 metal binding site [ion binding]; metal-binding site 1335307016669 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 1335307016670 GTPase Era; Reviewed; Region: era; PRK00089 1335307016671 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1335307016672 G1 box; other site 1335307016673 GTP/Mg2+ binding site [chemical binding]; other site 1335307016674 Switch I region; other site 1335307016675 G2 box; other site 1335307016676 Switch II region; other site 1335307016677 G3 box; other site 1335307016678 G4 box; other site 1335307016679 G5 box; other site 1335307016680 KH domain; Region: KH_2; pfam07650 1335307016681 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1335307016682 Recombination protein O N terminal; Region: RecO_N; pfam11967 1335307016683 Recombination protein O C terminal; Region: RecO_C; pfam02565 1335307016684 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 1335307016685 active site 1335307016686 hydrophilic channel; other site 1335307016687 dimerization interface [polypeptide binding]; other site 1335307016688 catalytic residues [active] 1335307016689 active site lid [active] 1335307016690 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1335307016691 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1335307016692 beta-hexosaminidase; Provisional; Region: PRK05337 1335307016693 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1335307016694 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 1335307016695 active site 1335307016696 phosphorylation site [posttranslational modification] 1335307016697 intermolecular recognition site; other site 1335307016698 dimerization interface [polypeptide binding]; other site 1335307016699 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 1335307016700 Walker A motif; other site 1335307016701 ATP binding site [chemical binding]; other site 1335307016702 Walker B motif; other site 1335307016703 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1335307016704 elongation factor P; Validated; Region: PRK00529 1335307016705 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1335307016706 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 1335307016707 RNA binding site [nucleotide binding]; other site 1335307016708 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 1335307016709 RNA binding site [nucleotide binding]; other site 1335307016710 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 1335307016711 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 1335307016712 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1335307016713 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1335307016714 GIY-YIG motif/motif A; other site 1335307016715 active site 1335307016716 catalytic site [active] 1335307016717 putative DNA binding site [nucleotide binding]; other site 1335307016718 metal binding site [ion binding]; metal-binding site 1335307016719 UvrB/uvrC motif; Region: UVR; pfam02151 1335307016720 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1335307016721 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1335307016722 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1335307016723 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1335307016724 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1335307016725 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 1335307016726 active site 1335307016727 DNA binding site [nucleotide binding] 1335307016728 Int/Topo IB signature motif; other site 1335307016729 Helix-turn-helix domain; Region: HTH_17; pfam12728 1335307016730 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 1335307016731 sequence-specific DNA binding site [nucleotide binding]; other site 1335307016732 salt bridge; other site 1335307016733 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 1335307016734 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 1335307016735 Predicted P-loop ATPase and inactivated derivatives [General function prediction only]; Region: COG5545 1335307016736 Virulence-associated protein E; Region: VirE; pfam05272 1335307016737 DnaJ central domain; Region: DnaJ_CXXCXGXG; pfam00684 1335307016738 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1335307016739 Zn binding sites [ion binding]; other site 1335307016740 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 1335307016741 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 1335307016742 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 1335307016743 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 1335307016744 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 1335307016745 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 1335307016746 Domain of unknown function (DUF1789); Region: DUF1789; pfam08748 1335307016747 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 1335307016748 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 1335307016749 Phage-related minor tail protein [Function unknown]; Region: COG5281 1335307016750 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 1335307016751 Phage-related protein [Function unknown]; Region: gp18; COG4672 1335307016752 NlpC/P60 family; Region: NLPC_P60; cl17555 1335307016753 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1335307016754 Phage-related protein, tail component [Function unknown]; Region: COG4723 1335307016755 Phage-related protein, tail component [Function unknown]; Region: COG4733 1335307016756 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1335307016757 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 1335307016758 Phage holin family 2; Region: Phage_holin_2; pfam04550 1335307016759 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1335307016760 catalytic residue [active] 1335307016761 Protein of unknown function (DUF2514); Region: DUF2514; pfam10721 1335307016762 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 1335307016763 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 1335307016764 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 1335307016765 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1335307016766 LysR family transcriptional regulator; Provisional; Region: PRK14997 1335307016767 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307016768 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 1335307016769 putative effector binding pocket; other site 1335307016770 putative dimerization interface [polypeptide binding]; other site 1335307016771 Pirin-related protein [General function prediction only]; Region: COG1741 1335307016772 Pirin; Region: Pirin; pfam02678 1335307016773 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1335307016774 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1335307016775 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 1335307016776 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1335307016777 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1335307016778 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 1335307016779 Cu(I) binding site [ion binding]; other site 1335307016780 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 1335307016781 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 1335307016782 active site 1335307016783 motif I; other site 1335307016784 motif II; other site 1335307016785 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 1335307016786 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 1335307016787 active site 1335307016788 homotetramer interface [polypeptide binding]; other site 1335307016789 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1335307016790 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1335307016791 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1335307016792 Walker A/P-loop; other site 1335307016793 ATP binding site [chemical binding]; other site 1335307016794 Q-loop/lid; other site 1335307016795 ABC transporter signature motif; other site 1335307016796 Walker B; other site 1335307016797 D-loop; other site 1335307016798 H-loop/switch region; other site 1335307016799 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 1335307016800 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1335307016801 putative ADP-binding pocket [chemical binding]; other site 1335307016802 Predicted membrane protein (DUF2214); Region: DUF2214; pfam09980 1335307016803 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1335307016804 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1335307016805 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1335307016806 dimerization interface [polypeptide binding]; other site 1335307016807 ligand binding site [chemical binding]; other site 1335307016808 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 1335307016809 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1335307016810 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1335307016811 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1335307016812 pyridoxamine kinase; Validated; Region: PRK05756 1335307016813 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 1335307016814 dimer interface [polypeptide binding]; other site 1335307016815 pyridoxal binding site [chemical binding]; other site 1335307016816 ATP binding site [chemical binding]; other site 1335307016817 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1335307016818 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1335307016819 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1335307016820 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1335307016821 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1335307016822 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 1335307016823 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 1335307016824 ligand binding site; other site 1335307016825 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 1335307016826 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1335307016827 B12 binding site [chemical binding]; other site 1335307016828 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 1335307016829 FeS/SAM binding site; other site 1335307016830 hopanoid biosynthesis associated protein HpnK and similar proteins; Region: YdjC_HpnK_like; cd10804 1335307016831 putative active site [active] 1335307016832 YdjC motif; other site 1335307016833 Mg binding site [ion binding]; other site 1335307016834 putative homodimer interface [polypeptide binding]; other site 1335307016835 putative membrane protein; Region: HpnL; TIGR03476 1335307016836 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1335307016837 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1335307016838 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 1335307016839 dimer interface [polypeptide binding]; other site 1335307016840 conserved gate region; other site 1335307016841 putative PBP binding loops; other site 1335307016842 ABC-ATPase subunit interface; other site 1335307016843 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1335307016844 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 1335307016845 dimer interface [polypeptide binding]; other site 1335307016846 conserved gate region; other site 1335307016847 putative PBP binding loops; other site 1335307016848 ABC-ATPase subunit interface; other site 1335307016849 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1335307016850 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1335307016851 Walker A/P-loop; other site 1335307016852 ATP binding site [chemical binding]; other site 1335307016853 Q-loop/lid; other site 1335307016854 ABC transporter signature motif; other site 1335307016855 Walker B; other site 1335307016856 D-loop; other site 1335307016857 H-loop/switch region; other site 1335307016858 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1335307016859 conserved cys residue [active] 1335307016860 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307016861 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1335307016862 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307016863 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 1335307016864 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 1335307016865 inhibitor-cofactor binding pocket; inhibition site 1335307016866 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307016867 catalytic residue [active] 1335307016868 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1335307016869 arginine/ornithine succinyltransferase, alpha subunit; Region: arg_AOST_alph; TIGR03245 1335307016870 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1335307016871 arginine N-succinyltransferase; Region: arg_catab_AstA; TIGR03244 1335307016872 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 1335307016873 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 1335307016874 NAD(P) binding site [chemical binding]; other site 1335307016875 catalytic residues [active] 1335307016876 succinylarginine dihydrolase; Provisional; Region: PRK13281 1335307016877 succinylglutamate desuccinylase; Provisional; Region: PRK05324 1335307016878 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1335307016879 active site 1335307016880 Zn binding site [ion binding]; other site 1335307016881 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1335307016882 dimer interface [polypeptide binding]; other site 1335307016883 N-terminal domain interface [polypeptide binding]; other site 1335307016884 substrate binding pocket (H-site) [chemical binding]; other site 1335307016885 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1335307016886 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 1335307016887 substrate binding pocket [chemical binding]; other site 1335307016888 membrane-bound complex binding site; other site 1335307016889 hinge residues; other site 1335307016890 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 1335307016891 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1335307016892 putative di-iron ligands [ion binding]; other site 1335307016893 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 1335307016894 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 1335307016895 Subunit I/III interface [polypeptide binding]; other site 1335307016896 Subunit III/IV interface [polypeptide binding]; other site 1335307016897 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1335307016898 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 1335307016899 D-pathway; other site 1335307016900 Putative ubiquinol binding site [chemical binding]; other site 1335307016901 Low-spin heme (heme b) binding site [chemical binding]; other site 1335307016902 Putative water exit pathway; other site 1335307016903 Binuclear center (heme o3/CuB) [ion binding]; other site 1335307016904 K-pathway; other site 1335307016905 Putative proton exit pathway; other site 1335307016906 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 1335307016907 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1335307016908 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1335307016909 Hemerythrin; Region: Hemerythrin; cd12107 1335307016910 Fe binding site [ion binding]; other site 1335307016911 Transcriptional regulator; Region: Rrf2; cl17282 1335307016912 Rrf2 family protein; Region: rrf2_super; TIGR00738 1335307016913 Uncharacterized conserved protein (DUF2249); Region: DUF2249; cl17719 1335307016914 Domain of unknown function DUF59; Region: DUF59; cl00941 1335307016915 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1335307016916 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1335307016917 trimerization site [polypeptide binding]; other site 1335307016918 active site 1335307016919 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1335307016920 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 1335307016921 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1335307016922 catalytic residue [active] 1335307016923 FeS assembly protein SufD; Region: sufD; TIGR01981 1335307016924 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 1335307016925 FeS assembly ATPase SufC; Region: sufC; TIGR01978 1335307016926 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1335307016927 Walker A/P-loop; other site 1335307016928 ATP binding site [chemical binding]; other site 1335307016929 Q-loop/lid; other site 1335307016930 ABC transporter signature motif; other site 1335307016931 Walker B; other site 1335307016932 D-loop; other site 1335307016933 H-loop/switch region; other site 1335307016934 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1335307016935 putative ABC transporter; Region: ycf24; CHL00085 1335307016936 NnrS protein; Region: NnrS; pfam05940 1335307016937 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 1335307016938 dimerization interface [polypeptide binding]; other site 1335307016939 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1335307016940 dimer interface [polypeptide binding]; other site 1335307016941 putative CheW interface [polypeptide binding]; other site 1335307016942 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1335307016943 HemN C-terminal domain; Region: HemN_C; pfam06969 1335307016944 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1335307016945 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 1335307016946 ligand binding site [chemical binding]; other site 1335307016947 flexible hinge region; other site 1335307016948 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1335307016949 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1335307016950 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 1335307016951 FMN binding site [chemical binding]; other site 1335307016952 substrate binding site [chemical binding]; other site 1335307016953 putative catalytic residue [active] 1335307016954 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1335307016955 Peptidase family U32; Region: Peptidase_U32; pfam01136 1335307016956 putative protease; Provisional; Region: PRK15447 1335307016957 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1335307016958 SCP-2 sterol transfer family; Region: SCP2; cl01225 1335307016959 DGC domain; Region: DGC; pfam08859 1335307016960 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 1335307016961 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 1335307016962 FeS/SAM binding site; other site 1335307016963 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 1335307016964 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 1335307016965 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1335307016966 effector binding site; other site 1335307016967 active site 1335307016968 Zn binding site [ion binding]; other site 1335307016969 NnrS protein; Region: NnrS; pfam05940 1335307016970 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1335307016971 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 1335307016972 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 1335307016973 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1335307016974 Di-iron ligands [ion binding]; other site 1335307016975 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 1335307016976 DNA photolyase; Region: DNA_photolyase; pfam00875 1335307016977 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 1335307016978 ligand-binding site [chemical binding]; other site 1335307016979 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 1335307016980 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1335307016981 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 1335307016982 DNA binding residues [nucleotide binding] 1335307016983 dimerization interface [polypeptide binding]; other site 1335307016984 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1335307016985 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 1335307016986 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1335307016987 active sites [active] 1335307016988 tetramer interface [polypeptide binding]; other site 1335307016989 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 1335307016990 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1335307016991 DNA-binding site [nucleotide binding]; DNA binding site 1335307016992 UTRA domain; Region: UTRA; pfam07702 1335307016993 urocanate hydratase; Provisional; Region: PRK05414 1335307016994 HutD; Region: HutD; pfam05962 1335307016995 imidazolonepropionase; Validated; Region: PRK09356 1335307016996 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 1335307016997 active site 1335307016998 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 1335307016999 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 1335307017000 active site 1335307017001 N-formylglutamate amidohydrolase; Region: FGase; cl01522 1335307017002 Peptidase C26; Region: Peptidase_C26; pfam07722 1335307017003 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1335307017004 catalytic triad [active] 1335307017005 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1335307017006 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1335307017007 putative aminotransferase; Validated; Region: PRK07480 1335307017008 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 1335307017009 inhibitor-cofactor binding pocket; inhibition site 1335307017010 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307017011 catalytic residue [active] 1335307017012 AAA domain; Region: AAA_21; pfam13304 1335307017013 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 1335307017014 ABC transporter signature motif; other site 1335307017015 Walker B; other site 1335307017016 D-loop; other site 1335307017017 H-loop/switch region; other site 1335307017018 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1335307017019 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307017020 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 1335307017021 dimerization interface [polypeptide binding]; other site 1335307017022 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1335307017023 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1335307017024 active site 1335307017025 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1335307017026 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1335307017027 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 1335307017028 metabolite-proton symporter; Region: 2A0106; TIGR00883 1335307017029 putative substrate translocation pore; other site 1335307017030 oxidative damage protection protein; Provisional; Region: PRK05408 1335307017031 N-acetylglutamate synthase; Validated; Region: PRK05279 1335307017032 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 1335307017033 putative feedback inhibition sensing region; other site 1335307017034 putative nucleotide binding site [chemical binding]; other site 1335307017035 putative substrate binding site [chemical binding]; other site 1335307017036 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1335307017037 Coenzyme A binding pocket [chemical binding]; other site 1335307017038 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 1335307017039 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 1335307017040 ATP binding site [chemical binding]; other site 1335307017041 putative Mg++ binding site [ion binding]; other site 1335307017042 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 1335307017043 nucleotide binding region [chemical binding]; other site 1335307017044 ATP-binding site [chemical binding]; other site 1335307017045 Helicase associated domain (HA2); Region: HA2; pfam04408 1335307017046 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1335307017047 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1335307017048 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1335307017049 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1335307017050 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1335307017051 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1335307017052 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1335307017053 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 1335307017054 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 1335307017055 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 1335307017056 putative MPT binding site; other site 1335307017057 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 1335307017058 active site residue [active] 1335307017059 glutamine synthetase; Provisional; Region: glnA; PRK09469 1335307017060 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1335307017061 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1335307017062 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1335307017063 PAS domain; Region: PAS; smart00091 1335307017064 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 1335307017065 dimer interface [polypeptide binding]; other site 1335307017066 phosphorylation site [posttranslational modification] 1335307017067 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 1335307017068 ATP binding site [chemical binding]; other site 1335307017069 Mg2+ binding site [ion binding]; other site 1335307017070 G-X-G motif; other site 1335307017071 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1335307017072 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 1335307017073 active site 1335307017074 phosphorylation site [posttranslational modification] 1335307017075 intermolecular recognition site; other site 1335307017076 dimerization interface [polypeptide binding]; other site 1335307017077 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 1335307017078 Walker A motif; other site 1335307017079 ATP binding site [chemical binding]; other site 1335307017080 Walker B motif; other site 1335307017081 arginine finger; other site 1335307017082 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1335307017083 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 1335307017084 putative catalytic site [active] 1335307017085 putative phosphate binding site [ion binding]; other site 1335307017086 active site 1335307017087 metal binding site A [ion binding]; metal-binding site 1335307017088 DNA binding site [nucleotide binding] 1335307017089 putative AP binding site [nucleotide binding]; other site 1335307017090 putative metal binding site B [ion binding]; other site 1335307017091 transcriptional regulator NarL; Provisional; Region: PRK10651 1335307017092 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 1335307017093 active site 1335307017094 phosphorylation site [posttranslational modification] 1335307017095 intermolecular recognition site; other site 1335307017096 dimerization interface [polypeptide binding]; other site 1335307017097 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 1335307017098 DNA binding residues [nucleotide binding] 1335307017099 dimerization interface [polypeptide binding]; other site 1335307017100 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 1335307017101 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1335307017102 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 1335307017103 dimerization interface [polypeptide binding]; other site 1335307017104 GAF domain; Region: GAF; pfam01590 1335307017105 Histidine kinase; Region: HisKA_3; pfam07730 1335307017106 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 1335307017107 ATP binding site [chemical binding]; other site 1335307017108 Mg2+ binding site [ion binding]; other site 1335307017109 G-X-G motif; other site 1335307017110 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 1335307017111 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 1335307017112 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 1335307017113 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 1335307017114 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 1335307017115 [4Fe-4S] binding site [ion binding]; other site 1335307017116 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 1335307017117 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 1335307017118 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 1335307017119 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 1335307017120 molybdopterin cofactor binding site; other site 1335307017121 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 1335307017122 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 1335307017123 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1335307017124 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 1335307017125 putative substrate translocation pore; other site 1335307017126 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1335307017127 active site 1335307017128 DNA polymerase IV; Validated; Region: PRK02406 1335307017129 DNA binding site [nucleotide binding] 1335307017130 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1335307017131 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1335307017132 active site 1335307017133 Zn binding site [ion binding]; other site 1335307017134 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 1335307017135 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1335307017136 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1335307017137 homodimer interface [polypeptide binding]; other site 1335307017138 NADP binding site [chemical binding]; other site 1335307017139 substrate binding site [chemical binding]; other site 1335307017140 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1335307017141 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 1335307017142 active site 1335307017143 phosphorylation site [posttranslational modification] 1335307017144 intermolecular recognition site; other site 1335307017145 dimerization interface [polypeptide binding]; other site 1335307017146 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 1335307017147 DNA binding residues [nucleotide binding] 1335307017148 dimerization interface [polypeptide binding]; other site 1335307017149 PAS domain S-box; Region: sensory_box; TIGR00229 1335307017150 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 1335307017151 putative active site [active] 1335307017152 heme pocket [chemical binding]; other site 1335307017153 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 1335307017154 dimer interface [polypeptide binding]; other site 1335307017155 phosphorylation site [posttranslational modification] 1335307017156 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 1335307017157 ATP binding site [chemical binding]; other site 1335307017158 Mg2+ binding site [ion binding]; other site 1335307017159 G-X-G motif; other site 1335307017160 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1335307017161 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 1335307017162 dimer interface [polypeptide binding]; other site 1335307017163 TPP-binding site [chemical binding]; other site 1335307017164 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 1335307017165 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 1335307017166 E3 interaction surface; other site 1335307017167 lipoyl attachment site [posttranslational modification]; other site 1335307017168 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 1335307017169 E3 interaction surface; other site 1335307017170 lipoyl attachment site [posttranslational modification]; other site 1335307017171 e3 binding domain; Region: E3_binding; pfam02817 1335307017172 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1335307017173 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 1335307017174 E3 interaction surface; other site 1335307017175 lipoyl attachment site [posttranslational modification]; other site 1335307017176 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1335307017177 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1335307017178 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1335307017179 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1335307017180 Phasin protein; Region: Phasin_2; pfam09361 1335307017181 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1335307017182 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1335307017183 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1335307017184 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1335307017185 Bacterial transcriptional regulator; Region: IclR; pfam01614 1335307017186 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1335307017187 Cysteine-rich domain; Region: CCG; pfam02754 1335307017188 Cysteine-rich domain; Region: CCG; pfam02754 1335307017189 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 1335307017190 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1335307017191 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 1335307017192 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 1335307017193 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1335307017194 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1335307017195 active site 1335307017196 Predicted transcriptional regulator [Transcription]; Region: COG1959 1335307017197 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 1335307017198 cysteine desulfurase; Provisional; Region: PRK14012 1335307017199 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1335307017200 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1335307017201 catalytic residue [active] 1335307017202 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1335307017203 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1335307017204 trimerization site [polypeptide binding]; other site 1335307017205 active site 1335307017206 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1335307017207 co-chaperone HscB; Provisional; Region: hscB; PRK03578 1335307017208 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 1335307017209 HSP70 interaction site [polypeptide binding]; other site 1335307017210 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1335307017211 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1335307017212 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 1335307017213 nucleotide binding site [chemical binding]; other site 1335307017214 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1335307017215 SBD interface [polypeptide binding]; other site 1335307017216 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1335307017217 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 1335307017218 catalytic loop [active] 1335307017219 iron binding site [ion binding]; other site 1335307017220 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 1335307017221 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1335307017222 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 1335307017223 dimer interface [polypeptide binding]; other site 1335307017224 putative anticodon binding site; other site 1335307017225 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 1335307017226 motif 1; other site 1335307017227 active site 1335307017228 motif 2; other site 1335307017229 motif 3; other site 1335307017230 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1335307017231 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1335307017232 RF-1 domain; Region: RF-1; pfam00472 1335307017233 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1335307017234 DHH family; Region: DHH; pfam01368 1335307017235 DHHA1 domain; Region: DHHA1; pfam02272 1335307017236 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 1335307017237 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1335307017238 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1335307017239 FtsX-like permease family; Region: FtsX; pfam02687 1335307017240 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1335307017241 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1335307017242 Walker A/P-loop; other site 1335307017243 ATP binding site [chemical binding]; other site 1335307017244 Q-loop/lid; other site 1335307017245 ABC transporter signature motif; other site 1335307017246 Walker B; other site 1335307017247 D-loop; other site 1335307017248 H-loop/switch region; other site 1335307017249 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1335307017250 active site 1335307017251 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1335307017252 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1335307017253 Competence protein; Region: Competence; pfam03772 1335307017254 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1335307017255 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1335307017256 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1335307017257 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cd00741 1335307017258 nucleophilic elbow; other site 1335307017259 catalytic triad; other site 1335307017260 CTP synthetase; Validated; Region: pyrG; PRK05380 1335307017261 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 1335307017262 Catalytic site [active] 1335307017263 active site 1335307017264 UTP binding site [chemical binding]; other site 1335307017265 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1335307017266 active site 1335307017267 putative oxyanion hole; other site 1335307017268 catalytic triad [active] 1335307017269 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1335307017270 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1335307017271 enolase; Provisional; Region: eno; PRK00077 1335307017272 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 1335307017273 dimer interface [polypeptide binding]; other site 1335307017274 metal binding site [ion binding]; metal-binding site 1335307017275 substrate binding pocket [chemical binding]; other site 1335307017276 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 1335307017277 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1335307017278 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1335307017279 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 1335307017280 dimerization interface [polypeptide binding]; other site 1335307017281 domain crossover interface; other site 1335307017282 redox-dependent activation switch; other site 1335307017283 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1335307017284 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 1335307017285 trimer interface [polypeptide binding]; other site 1335307017286 putative metal binding site [ion binding]; other site 1335307017287 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1335307017288 dinuclear metal binding motif [ion binding]; other site 1335307017289 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1335307017290 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1335307017291 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1335307017292 catalytic site [active] 1335307017293 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1335307017294 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1335307017295 active site 1335307017296 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1335307017297 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1335307017298 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 1335307017299 Peptidase family M50; Region: Peptidase_M50; pfam02163 1335307017300 active site 1335307017301 putative substrate binding region [chemical binding]; other site 1335307017302 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1335307017303 active site 1335307017304 HIGH motif; other site 1335307017305 dimer interface [polypeptide binding]; other site 1335307017306 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1335307017307 active site 1335307017308 KMSKS motif; other site 1335307017309 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 1335307017310 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1335307017311 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1335307017312 dimer interface [polypeptide binding]; other site 1335307017313 active site 1335307017314 catalytic residue [active] 1335307017315 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 1335307017316 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1335307017317 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1335307017318 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1335307017319 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1335307017320 MutS domain I; Region: MutS_I; pfam01624 1335307017321 MutS domain II; Region: MutS_II; pfam05188 1335307017322 MutS domain III; Region: MutS_III; pfam05192 1335307017323 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1335307017324 Walker A/P-loop; other site 1335307017325 ATP binding site [chemical binding]; other site 1335307017326 Q-loop/lid; other site 1335307017327 ABC transporter signature motif; other site 1335307017328 Walker B; other site 1335307017329 D-loop; other site 1335307017330 H-loop/switch region; other site 1335307017331 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 1335307017332 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1335307017333 active site 1335307017334 DNA binding site [nucleotide binding] 1335307017335 Int/Topo IB signature motif; other site 1335307017336 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 1335307017337 ParB-like nuclease domain; Region: ParBc; cl02129 1335307017338 Predicted P-loop ATPase and inactivated derivatives [General function prediction only]; Region: COG5545 1335307017339 Virulence-associated protein E; Region: VirE; pfam05272 1335307017340 MarR family; Region: MarR_2; cl17246 1335307017341 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 1335307017342 Uncharacterized archaeal Zn-finger protein [General function prediction only]; Region: COG1326 1335307017343 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 1335307017344 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 1335307017345 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 1335307017346 Clp protease; Region: CLP_protease; pfam00574 1335307017347 oligomer interface [polypeptide binding]; other site 1335307017348 active site residues [active] 1335307017349 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 1335307017350 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 1335307017351 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 1335307017352 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 1335307017353 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 1335307017354 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1335307017355 Baseplate J-like protein; Region: Baseplate_J; cl01294 1335307017356 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 1335307017357 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 1335307017358 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 1335307017359 Phage tail tube protein FII; Region: Phage_tube; pfam04985 1335307017360 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1335307017361 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1335307017362 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 1335307017363 Phage Tail Protein X; Region: Phage_tail_X; cl02088 1335307017364 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1335307017365 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1335307017366 catalytic residue [active] 1335307017367 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 1335307017368 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1335307017369 PAAR motif; Region: PAAR_motif; pfam05488 1335307017370 Helix-turn-helix domain; Region: HTH_17; cl17695 1335307017371 PIN domain; Region: PIN_3; pfam13470 1335307017372 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 1335307017373 nif11-like peptide radical SAM maturase; Region: rSAM_nif11; TIGR04064 1335307017374 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1335307017375 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 1335307017376 active site 1335307017377 dimerization interface [polypeptide binding]; other site 1335307017378 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1335307017379 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1335307017380 serine O-acetyltransferase; Region: cysE; TIGR01172 1335307017381 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 1335307017382 trimer interface [polypeptide binding]; other site 1335307017383 active site 1335307017384 substrate binding site [chemical binding]; other site 1335307017385 CoA binding site [chemical binding]; other site 1335307017386 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1335307017387 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1335307017388 putative active site [active] 1335307017389 putative metal binding site [ion binding]; other site 1335307017390 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 1335307017391 substrate binding site [chemical binding]; other site 1335307017392 Peptidyl-prolyl cis-trans isomerase (rotamase) - cyclophilin family [Posttranslational modification, protein turnover, chaperones]; Region: PpiB; COG0652 1335307017393 active site 1335307017394 TPR repeat; Region: TPR_11; pfam13414 1335307017395 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 1335307017396 binding surface 1335307017397 TPR motif; other site 1335307017398 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1335307017399 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1335307017400 active site 1335307017401 HIGH motif; other site 1335307017402 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1335307017403 KMSKS motif; other site 1335307017404 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1335307017405 tRNA binding surface [nucleotide binding]; other site 1335307017406 anticodon binding site; other site 1335307017407 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1335307017408 endonuclease III; Region: ENDO3c; smart00478 1335307017409 minor groove reading motif; other site 1335307017410 helix-hairpin-helix signature motif; other site 1335307017411 substrate binding pocket [chemical binding]; other site 1335307017412 active site 1335307017413 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1335307017414 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1335307017415 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 1335307017416 Ligand Binding Site [chemical binding]; other site 1335307017417 TilS substrate binding domain; Region: TilS; pfam09179 1335307017418 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1335307017419 aspartate kinase; Reviewed; Region: PRK06635 1335307017420 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 1335307017421 putative Mg ion binding site [ion binding]; other site 1335307017422 putative aspartate binding site [chemical binding]; other site 1335307017423 putative catalytic residues [active] 1335307017424 putative nucleotide binding site [chemical binding]; other site 1335307017425 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 1335307017426 putative allosteric regulatory site; other site 1335307017427 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 1335307017428 Fatty acyltransferase-like subfamily of the SGNH hydrolases, 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...; Region: fatty_acyltransferase_like; cd01846 1335307017429 active site 1335307017430 catalytic triad [active] 1335307017431 oxyanion hole [active] 1335307017432 Autotransporter beta-domain; Region: Autotransporter; smart00869 1335307017433 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1335307017434 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1335307017435 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1335307017436 HlyD family secretion protein; Region: HlyD_3; pfam13437 1335307017437 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 1335307017438 ligand-binding site [chemical binding]; other site 1335307017439 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1335307017440 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1335307017441 acyl-activating enzyme (AAE) consensus motif; other site 1335307017442 AMP binding site [chemical binding]; other site 1335307017443 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307017444 Transmembrane secretion effector; Region: MFS_3; pfam05977 1335307017445 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 1335307017446 putative substrate translocation pore; other site 1335307017447 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 1335307017448 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1335307017449 Condensation domain; Region: Condensation; pfam00668 1335307017450 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1335307017451 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1335307017452 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1335307017453 acyl-activating enzyme (AAE) consensus motif; other site 1335307017454 AMP binding site [chemical binding]; other site 1335307017455 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307017456 Condensation domain; Region: Condensation; pfam00668 1335307017457 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1335307017458 Condensation domain; Region: Condensation; pfam00668 1335307017459 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1335307017460 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1335307017461 acyl-activating enzyme (AAE) consensus motif; other site 1335307017462 AMP binding site [chemical binding]; other site 1335307017463 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1335307017464 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1335307017465 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 1335307017466 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1335307017467 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; cl00184 1335307017468 active site 1335307017469 iron coordination sites [ion binding]; other site 1335307017470 substrate binding pocket [chemical binding]; other site 1335307017471 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 1335307017472 S-adenosylmethionine binding site [chemical binding]; other site 1335307017473 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 1335307017474 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 1335307017475 TPP-binding site [chemical binding]; other site 1335307017476 dimer interface [polypeptide binding]; other site 1335307017477 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 1335307017478 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1335307017479 PYR/PP interface [polypeptide binding]; other site 1335307017480 dimer interface [polypeptide binding]; other site 1335307017481 TPP binding site [chemical binding]; other site 1335307017482 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1335307017483 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 1335307017484 phosphoserine aminotransferase; Provisional; Region: PRK12462 1335307017485 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1335307017486 catalytic residue [active] 1335307017487 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 1335307017488 active site 1335307017489 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1335307017490 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 1335307017491 Active Sites [active] 1335307017492 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1335307017493 G1 box; other site 1335307017494 GTP/Mg2+ binding site [chemical binding]; other site 1335307017495 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 1335307017496 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1335307017497 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 1335307017498 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1335307017499 catalytic residue [active] 1335307017500 argininosuccinate lyase; Provisional; Region: PRK02186 1335307017501 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1335307017502 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1335307017503 active sites [active] 1335307017504 tetramer interface [polypeptide binding]; other site 1335307017505 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 1335307017506 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 1335307017507 active site 1335307017508 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1335307017509 Ferredoxin [Energy production and conversion]; Region: COG1146 1335307017510 4Fe-4S binding domain; Region: Fer4; cl02805 1335307017511 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1335307017512 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1335307017513 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 1335307017514 FAD binding pocket [chemical binding]; other site 1335307017515 FAD binding motif [chemical binding]; other site 1335307017516 phosphate binding motif [ion binding]; other site 1335307017517 beta-alpha-beta structure motif; other site 1335307017518 NAD binding pocket [chemical binding]; other site 1335307017519 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1335307017520 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 1335307017521 putative [Fe4-S4] binding site [ion binding]; other site 1335307017522 putative molybdopterin cofactor binding site [chemical binding]; other site 1335307017523 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 1335307017524 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 1335307017525 putative molybdopterin cofactor binding site; other site 1335307017526 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 1335307017527 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1335307017528 NAD binding site [chemical binding]; other site 1335307017529 homotetramer interface [polypeptide binding]; other site 1335307017530 homodimer interface [polypeptide binding]; other site 1335307017531 substrate binding site [chemical binding]; other site 1335307017532 active site 1335307017533 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1335307017534 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 1335307017535 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1335307017536 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 1335307017537 dimer interface [polypeptide binding]; other site 1335307017538 conserved gate region; other site 1335307017539 putative PBP binding loops; other site 1335307017540 ABC-ATPase subunit interface; other site 1335307017541 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1335307017542 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 1335307017543 dimer interface [polypeptide binding]; other site 1335307017544 conserved gate region; other site 1335307017545 putative PBP binding loops; other site 1335307017546 ABC-ATPase subunit interface; other site 1335307017547 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1335307017548 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1335307017549 Walker A/P-loop; other site 1335307017550 ATP binding site [chemical binding]; other site 1335307017551 Q-loop/lid; other site 1335307017552 ABC transporter signature motif; other site 1335307017553 Walker B; other site 1335307017554 D-loop; other site 1335307017555 H-loop/switch region; other site 1335307017556 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1335307017557 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1335307017558 Walker A/P-loop; other site 1335307017559 ATP binding site [chemical binding]; other site 1335307017560 Q-loop/lid; other site 1335307017561 ABC transporter signature motif; other site 1335307017562 Walker B; other site 1335307017563 D-loop; other site 1335307017564 H-loop/switch region; other site 1335307017565 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1335307017566 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1335307017567 NlpC/P60 family; Region: NLPC_P60; pfam00877 1335307017568 hypothetical protein; Provisional; Region: PRK10279 1335307017569 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 1335307017570 nucleophile elbow; other site 1335307017571 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1335307017572 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1335307017573 active site 1335307017574 HIGH motif; other site 1335307017575 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1335307017576 active site 1335307017577 KMSKS motif; other site 1335307017578 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1335307017579 Coenzyme A binding pocket [chemical binding]; other site 1335307017580 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1335307017581 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1335307017582 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307017583 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1335307017584 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1335307017585 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 1335307017586 putative active site pocket [active] 1335307017587 dimerization interface [polypeptide binding]; other site 1335307017588 putative catalytic residue [active] 1335307017589 malate synthase A; Region: malate_syn_A; TIGR01344 1335307017590 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 1335307017591 active site 1335307017592 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1335307017593 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 1335307017594 motif II; other site 1335307017595 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307017596 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 1335307017597 putative effector binding pocket; other site 1335307017598 dimerization interface [polypeptide binding]; other site 1335307017599 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 1335307017600 Ligand Binding Site [chemical binding]; other site 1335307017601 isocitrate lyase; Provisional; Region: PRK15063 1335307017602 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 1335307017603 tetramer interface [polypeptide binding]; other site 1335307017604 active site 1335307017605 Mg2+/Mn2+ binding site [ion binding]; other site 1335307017606 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 1335307017607 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1335307017608 ATP binding site [chemical binding]; other site 1335307017609 Mg++ binding site [ion binding]; other site 1335307017610 motif III; other site 1335307017611 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 1335307017612 nucleotide binding region [chemical binding]; other site 1335307017613 ATP-binding site [chemical binding]; other site 1335307017614 Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a...; Region: ACBP; cl00221 1335307017615 acyl-CoA binding pocket [chemical binding]; other site 1335307017616 CoA binding site [chemical binding]; other site 1335307017617 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1335307017618 Glycoprotease family; Region: Peptidase_M22; pfam00814 1335307017619 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1335307017620 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1335307017621 Coenzyme A binding pocket [chemical binding]; other site 1335307017622 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1335307017623 Fe-S cluster binding site [ion binding]; other site 1335307017624 active site 1335307017625 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 1335307017626 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 1335307017627 dimer interface [polypeptide binding]; other site 1335307017628 substrate binding site [chemical binding]; other site 1335307017629 ATP binding site [chemical binding]; other site 1335307017630 lysophospholipid transporter LplT; Provisional; Region: PRK11195 1335307017631 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 1335307017632 alanine racemase; Reviewed; Region: dadX; PRK03646 1335307017633 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1335307017634 active site 1335307017635 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1335307017636 substrate binding site [chemical binding]; other site 1335307017637 catalytic residues [active] 1335307017638 dimer interface [polypeptide binding]; other site 1335307017639 DNA repair protein RadA; Provisional; Region: PRK11823 1335307017640 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 1335307017641 Walker A motif/ATP binding site; other site 1335307017642 ATP binding site [chemical binding]; other site 1335307017643 Walker B motif; other site 1335307017644 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1335307017645 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 1335307017646 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1335307017647 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1335307017648 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1335307017649 ABC transporter; Region: ABC_tran_2; pfam12848 1335307017650 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1335307017651 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 1335307017652 catalytic residues [active] 1335307017653 dimer interface [polypeptide binding]; other site 1335307017654 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1335307017655 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 1335307017656 putative active site [active] 1335307017657 catalytic site [active] 1335307017658 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 1335307017659 putative active site [active] 1335307017660 catalytic site [active] 1335307017661 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 1335307017662 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 1335307017663 S-adenosylmethionine binding site [chemical binding]; other site 1335307017664 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1335307017665 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1335307017666 metal binding site [ion binding]; metal-binding site 1335307017667 dimer interface [polypeptide binding]; other site 1335307017668 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 1335307017669 ArsC family; Region: ArsC; pfam03960 1335307017670 putative catalytic residues [active] 1335307017671 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1335307017672 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 1335307017673 trimer interface [polypeptide binding]; other site 1335307017674 active site 1335307017675 substrate binding site [chemical binding]; other site 1335307017676 CoA binding site [chemical binding]; other site 1335307017677 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 1335307017678 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 1335307017679 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307017680 homodimer interface [polypeptide binding]; other site 1335307017681 catalytic residue [active] 1335307017682 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1335307017683 EamA-like transporter family; Region: EamA; pfam00892 1335307017684 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1335307017685 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1335307017686 Walker A/P-loop; other site 1335307017687 ATP binding site [chemical binding]; other site 1335307017688 Q-loop/lid; other site 1335307017689 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1335307017690 Q-loop/lid; other site 1335307017691 ABC transporter signature motif; other site 1335307017692 Walker B; other site 1335307017693 D-loop; other site 1335307017694 H-loop/switch region; other site 1335307017695 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 1335307017696 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1335307017697 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 1335307017698 nucleotide binding pocket [chemical binding]; other site 1335307017699 K-X-D-G motif; other site 1335307017700 catalytic site [active] 1335307017701 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1335307017702 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1335307017703 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 1335307017704 Dimer interface [polypeptide binding]; other site 1335307017705 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 1335307017706 active site 1335307017707 catalytic residues [active] 1335307017708 metal binding site [ion binding]; metal-binding site 1335307017709 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1335307017710 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 1335307017711 RNA binding surface [nucleotide binding]; other site 1335307017712 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1335307017713 active site 1335307017714 PII uridylyl-transferase; Provisional; Region: PRK03059 1335307017715 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1335307017716 metal binding triad; other site 1335307017717 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1335307017718 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1335307017719 Zn2+ binding site [ion binding]; other site 1335307017720 Mg2+ binding site [ion binding]; other site 1335307017721 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 1335307017722 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 1335307017723 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 1335307017724 active site 1335307017725 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 1335307017726 rRNA interaction site [nucleotide binding]; other site 1335307017727 S8 interaction site; other site 1335307017728 putative laminin-1 binding site; other site 1335307017729 elongation factor Ts; Provisional; Region: tsf; PRK09377 1335307017730 UBA/TS-N domain; Region: UBA; pfam00627 1335307017731 Elongation factor TS; Region: EF_TS; pfam00889 1335307017732 Elongation factor TS; Region: EF_TS; pfam00889 1335307017733 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 1335307017734 putative nucleotide binding site [chemical binding]; other site 1335307017735 uridine monophosphate binding site [chemical binding]; other site 1335307017736 homohexameric interface [polypeptide binding]; other site 1335307017737 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1335307017738 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 1335307017739 hinge region; other site 1335307017740 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1335307017741 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 1335307017742 catalytic residue [active] 1335307017743 putative FPP diphosphate binding site; other site 1335307017744 putative FPP binding hydrophobic cleft; other site 1335307017745 dimer interface [polypeptide binding]; other site 1335307017746 putative IPP diphosphate binding site; other site 1335307017747 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1335307017748 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1335307017749 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1335307017750 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK12464 1335307017751 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1335307017752 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1335307017753 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1335307017754 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 1335307017755 active site 1335307017756 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 1335307017757 protein binding site [polypeptide binding]; other site 1335307017758 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1335307017759 putative substrate binding region [chemical binding]; other site 1335307017760 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1335307017761 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1335307017762 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1335307017763 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1335307017764 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1335307017765 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1335307017766 Surface antigen; Region: Bac_surface_Ag; pfam01103 1335307017767 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1335307017768 periplasmic chaperone; Provisional; Region: PRK10780 1335307017769 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1335307017770 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1335307017771 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 1335307017772 trimer interface [polypeptide binding]; other site 1335307017773 active site 1335307017774 UDP-GlcNAc binding site [chemical binding]; other site 1335307017775 lipid binding site [chemical binding]; lipid-binding site 1335307017776 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 1335307017777 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1335307017778 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 1335307017779 active site 1335307017780 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1335307017781 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1335307017782 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1335307017783 RNA/DNA hybrid binding site [nucleotide binding]; other site 1335307017784 active site 1335307017785 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1335307017786 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1335307017787 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1335307017788 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 1335307017789 peptidase domain interface [polypeptide binding]; other site 1335307017790 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 1335307017791 active site 1335307017792 catalytic triad [active] 1335307017793 calcium binding site [ion binding]; other site 1335307017794 Phytochelatin synthase; Region: Phytochelatin; pfam05023 1335307017795 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1335307017796 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1335307017797 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1335307017798 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1335307017799 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1335307017800 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 1335307017801 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 1335307017802 SmpB-tmRNA interface; other site 1335307017803 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1335307017804 putative coenzyme Q binding site [chemical binding]; other site 1335307017805 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 1335307017806 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1335307017807 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 1335307017808 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 1335307017809 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1335307017810 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 1335307017811 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 1335307017812 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 1335307017813 active site 1335307017814 GMP synthase; Reviewed; Region: guaA; PRK00074 1335307017815 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1335307017816 AMP/PPi binding site [chemical binding]; other site 1335307017817 candidate oxyanion hole; other site 1335307017818 catalytic triad [active] 1335307017819 potential glutamine specificity residues [chemical binding]; other site 1335307017820 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 1335307017821 ATP Binding subdomain [chemical binding]; other site 1335307017822 Ligand Binding sites [chemical binding]; other site 1335307017823 Dimerization subdomain; other site 1335307017824 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 1335307017825 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 1335307017826 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 1335307017827 nucleoside/Zn binding site; other site 1335307017828 dimer interface [polypeptide binding]; other site 1335307017829 catalytic motif [active] 1335307017830 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1335307017831 dimer interface [polypeptide binding]; other site 1335307017832 catalytic triad [active] 1335307017833 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1335307017834 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1335307017835 DNA-binding site [nucleotide binding]; DNA binding site 1335307017836 FCD domain; Region: FCD; pfam07729 1335307017837 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 1335307017838 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1335307017839 Na binding site [ion binding]; other site 1335307017840 putative substrate binding site [chemical binding]; other site 1335307017841 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 1335307017842 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1335307017843 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1335307017844 active site 1335307017845 catalytic site [active] 1335307017846 tetramer interface [polypeptide binding]; other site 1335307017847 OHCU decarboxylase; Region: UHCUDC; TIGR03164 1335307017848 allantoicase; Provisional; Region: PRK13257 1335307017849 Allantoicase repeat; Region: Allantoicase; pfam03561 1335307017850 Allantoicase repeat; Region: Allantoicase; pfam03561 1335307017851 ureidoglycolate hydrolase; Provisional; Region: PRK03606 1335307017852 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 1335307017853 Predicted membrane protein [Function unknown]; Region: COG3748 1335307017854 Protein of unknown function (DUF989); Region: DUF989; pfam06181 1335307017855 Cytochrome c; Region: Cytochrom_C; pfam00034 1335307017856 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 1335307017857 active site 1335307017858 homotetramer interface [polypeptide binding]; other site 1335307017859 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 1335307017860 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 1335307017861 active site 1335307017862 putative substrate binding pocket [chemical binding]; other site 1335307017863 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1335307017864 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1335307017865 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_4; cd08463 1335307017866 putative substrate binding pocket [chemical binding]; other site 1335307017867 putative dimerization interface [polypeptide binding]; other site 1335307017868 Dodecin; Region: Dodecin; pfam07311 1335307017869 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1335307017870 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1335307017871 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1335307017872 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1335307017873 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1335307017874 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 1335307017875 TPR motif; other site 1335307017876 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 1335307017877 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1335307017878 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1335307017879 Transglycosylase; Region: Transgly; pfam00912 1335307017880 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1335307017881 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 1335307017882 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 1335307017883 tetramer interface [polypeptide binding]; other site 1335307017884 hypothetical protein; Provisional; Region: PRK06815 1335307017885 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1335307017886 catalytic residue [active] 1335307017887 acetylornithine deacetylase; Provisional; Region: PRK07522 1335307017888 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1335307017889 metal binding site [ion binding]; metal-binding site 1335307017890 putative dimer interface [polypeptide binding]; other site 1335307017891 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1335307017892 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1335307017893 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 1335307017894 ATP binding site [chemical binding]; other site 1335307017895 putative Mg++ binding site [ion binding]; other site 1335307017896 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 1335307017897 nucleotide binding region [chemical binding]; other site 1335307017898 ATP-binding site [chemical binding]; other site 1335307017899 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1335307017900 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1335307017901 substrate binding site; other site 1335307017902 dimer interface; other site 1335307017903 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 1335307017904 homotrimer interaction site [polypeptide binding]; other site 1335307017905 zinc binding site [ion binding]; other site 1335307017906 CDP-binding sites; other site 1335307017907 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 1335307017908 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1335307017909 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1335307017910 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 1335307017911 dimer interface [polypeptide binding]; other site 1335307017912 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1335307017913 catalytic triad [active] 1335307017914 peroxidatic and resolving cysteines [active] 1335307017915 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1335307017916 HAMP domain; Region: HAMP; pfam00672 1335307017917 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 1335307017918 dimer interface [polypeptide binding]; other site 1335307017919 phosphorylation site [posttranslational modification] 1335307017920 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 1335307017921 ATP binding site [chemical binding]; other site 1335307017922 Mg2+ binding site [ion binding]; other site 1335307017923 G-X-G motif; other site 1335307017924 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1335307017925 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 1335307017926 active site 1335307017927 phosphorylation site [posttranslational modification] 1335307017928 intermolecular recognition site; other site 1335307017929 dimerization interface [polypeptide binding]; other site 1335307017930 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 1335307017931 DNA binding site [nucleotide binding] 1335307017932 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 1335307017933 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 1335307017934 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1335307017935 active site lid residues [active] 1335307017936 substrate binding pocket [chemical binding]; other site 1335307017937 catalytic residues [active] 1335307017938 substrate-Mg2+ binding site; other site 1335307017939 aspartate-rich region 1; other site 1335307017940 aspartate-rich region 2; other site 1335307017941 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1335307017942 PAAR motif; Region: PAAR_motif; pfam05488 1335307017943 Avidin family; Region: Avidin; pfam01382 1335307017944 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 1335307017945 PLD-like domain; Region: PLDc_2; pfam13091 1335307017946 putative active site [active] 1335307017947 catalytic site [active] 1335307017948 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 1335307017949 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1335307017950 active site 1335307017951 Zn binding site [ion binding]; other site 1335307017952 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1335307017953 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1335307017954 trimer interface [polypeptide binding]; other site 1335307017955 eyelet of channel; other site 1335307017956 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1335307017957 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 1335307017958 dimerization interface [polypeptide binding]; other site 1335307017959 DNA binding residues [nucleotide binding] 1335307017960 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1335307017961 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1335307017962 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1335307017963 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1335307017964 MarR family; Region: MarR_2; pfam12802 1335307017965 MarR family; Region: MarR_2; cl17246 1335307017966 Glycerate kinase family; Region: Gly_kinase; cl00841 1335307017967 trigger factor; Provisional; Region: tig; PRK01490 1335307017968 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1335307017969 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1335307017970 Clp protease; Region: CLP_protease; pfam00574 1335307017971 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1335307017972 oligomer interface [polypeptide binding]; other site 1335307017973 active site residues [active] 1335307017974 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1335307017975 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1335307017976 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 1335307017977 Walker A motif; other site 1335307017978 ATP binding site [chemical binding]; other site 1335307017979 Walker B motif; other site 1335307017980 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1335307017981 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1335307017982 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1335307017983 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 1335307017984 Walker A motif; other site 1335307017985 ATP binding site [chemical binding]; other site 1335307017986 Walker B motif; other site 1335307017987 arginine finger; other site 1335307017988 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1335307017989 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 1335307017990 30S subunit binding site; other site 1335307017991 SurA N-terminal domain; Region: SurA_N_3; cl07813 1335307017992 periplasmic folding chaperone; Provisional; Region: PRK10788 1335307017993 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1335307017994 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 1335307017995 active site 1335307017996 catalytic triad [active] 1335307017997 oxyanion hole [active] 1335307017998 switch loop; other site 1335307017999 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1335307018000 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1335307018001 Walker A/P-loop; other site 1335307018002 ATP binding site [chemical binding]; other site 1335307018003 Q-loop/lid; other site 1335307018004 ABC transporter signature motif; other site 1335307018005 Walker B; other site 1335307018006 D-loop; other site 1335307018007 H-loop/switch region; other site 1335307018008 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1335307018009 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 1335307018010 active site 1335307018011 dimer interface [polypeptide binding]; other site 1335307018012 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 1335307018013 dimer interface [polypeptide binding]; other site 1335307018014 active site 1335307018015 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 1335307018016 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 1335307018017 putative substrate binding site [chemical binding]; other site 1335307018018 putative ATP binding site [chemical binding]; other site 1335307018019 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1335307018020 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1335307018021 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 1335307018022 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 1335307018023 dimerization interface [polypeptide binding]; other site 1335307018024 ATP binding site [chemical binding]; other site 1335307018025 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 1335307018026 dimerization interface [polypeptide binding]; other site 1335307018027 ATP binding site [chemical binding]; other site 1335307018028 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1335307018029 putative active site [active] 1335307018030 catalytic triad [active] 1335307018031 Predicted acetyltransferase [General function prediction only]; Region: COG3153 1335307018032 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 1335307018033 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1335307018034 BolA-like protein; Region: BolA; pfam01722 1335307018035 intracellular septation protein A; Reviewed; Region: PRK00259 1335307018036 SelR domain; Region: SelR; pfam01641 1335307018037 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1335307018038 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1335307018039 hypothetical protein; Validated; Region: PRK00029 1335307018040 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 1335307018041 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 1335307018042 dimer interface [polypeptide binding]; other site 1335307018043 acyl-activating enzyme (AAE) consensus motif; other site 1335307018044 putative active site [active] 1335307018045 AMP binding site [chemical binding]; other site 1335307018046 putative CoA binding site [chemical binding]; other site 1335307018047 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 1335307018048 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1335307018049 substrate binding site [chemical binding]; other site 1335307018050 oxyanion hole (OAH) forming residues; other site 1335307018051 trimer interface [polypeptide binding]; other site 1335307018052 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1335307018053 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1335307018054 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1335307018055 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 1335307018056 catalytic triad [active] 1335307018057 metal binding site [ion binding]; metal-binding site 1335307018058 conserved cis-peptide bond; other site 1335307018059 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 1335307018060 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 1335307018061 dimer interface [polypeptide binding]; other site 1335307018062 active site 1335307018063 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 1335307018064 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 1335307018065 CoenzymeA binding site [chemical binding]; other site 1335307018066 subunit interaction site [polypeptide binding]; other site 1335307018067 PHB binding site; other site 1335307018068 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1335307018069 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1335307018070 NAD(P) binding site [chemical binding]; other site 1335307018071 substrate binding site [chemical binding]; other site 1335307018072 dimer interface [polypeptide binding]; other site 1335307018073 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1335307018074 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1335307018075 substrate binding pocket [chemical binding]; other site 1335307018076 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1335307018077 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1335307018078 Coenzyme A binding pocket [chemical binding]; other site 1335307018079 NRDE protein; Region: NRDE; cl01315 1335307018080 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1335307018081 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1335307018082 YceG-like family; Region: YceG; pfam02618 1335307018083 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1335307018084 dimerization interface [polypeptide binding]; other site 1335307018085 thymidylate kinase; Validated; Region: tmk; PRK00698 1335307018086 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 1335307018087 TMP-binding site; other site 1335307018088 ATP-binding site [chemical binding]; other site 1335307018089 DNA polymerase III subunit delta'; Validated; Region: PRK06964 1335307018090 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1335307018091 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1335307018092 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1335307018093 Coenzyme A binding pocket [chemical binding]; other site 1335307018094 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1335307018095 active site 1335307018096 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1335307018097 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 1335307018098 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1335307018099 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1335307018100 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1335307018101 Predicted ATPase [General function prediction only]; Region: COG4637 1335307018102 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1335307018103 Walker A/P-loop; other site 1335307018104 ATP binding site [chemical binding]; other site 1335307018105 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 1335307018106 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1335307018107 putative ADP-binding pocket [chemical binding]; other site 1335307018108 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 1335307018109 Domain of unknown function DUF221; Region: DUF221; pfam02714 1335307018110 psiF repeat; Region: PsiF_repeat; pfam07769 1335307018111 psiF repeat; Region: PsiF_repeat; pfam07769 1335307018112 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1335307018113 active site 1335307018114 homodimer interface [polypeptide binding]; other site 1335307018115 homotetramer interface [polypeptide binding]; other site 1335307018116 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1335307018117 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1335307018118 tartronate semialdehyde reductase; Provisional; Region: PRK15059 1335307018119 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1335307018120 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 1335307018121 glyoxylate carboligase; Provisional; Region: PRK11269 1335307018122 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1335307018123 PYR/PP interface [polypeptide binding]; other site 1335307018124 dimer interface [polypeptide binding]; other site 1335307018125 TPP binding site [chemical binding]; other site 1335307018126 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1335307018127 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 1335307018128 TPP-binding site [chemical binding]; other site