-- dump date 20140619_011034 -- class Genbank::misc_feature -- table misc_feature_note -- id note 224914000001 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 224914000002 substrate binding site [chemical binding]; other site 224914000003 active site 224914000004 Predicted membrane protein [Function unknown]; Region: COG1981 224914000005 transcription termination factor Rho; Provisional; Region: rho; PRK09376 224914000006 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 224914000007 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 224914000008 RNA binding site [nucleotide binding]; other site 224914000009 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 224914000010 multimer interface [polypeptide binding]; other site 224914000011 Walker A motif; other site 224914000012 ATP binding site [chemical binding]; other site 224914000013 Walker B motif; other site 224914000014 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 224914000015 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 224914000016 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 224914000017 catalytic residues [active] 224914000018 Predicted GTPase [General function prediction only]; Region: ThdF; COG0486 224914000019 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 224914000020 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 224914000021 trmE is a tRNA modification GTPase; Region: trmE; cd04164 224914000022 G1 box; other site 224914000023 G1 box; other site 224914000024 GTP/Mg2+ binding site [chemical binding]; other site 224914000025 GTP/Mg2+ binding site [chemical binding]; other site 224914000026 Switch I region; other site 224914000027 Switch I region; other site 224914000028 G2 box; other site 224914000029 G2 box; other site 224914000030 Switch II region; other site 224914000031 G3 box; other site 224914000032 G4 box; other site 224914000033 G5 box; other site 224914000034 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 224914000035 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 224914000036 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 224914000037 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 224914000038 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 224914000039 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 224914000040 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 224914000041 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 224914000042 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 224914000043 P-loop; other site 224914000044 Magnesium ion binding site [ion binding]; other site 224914000045 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 224914000046 Magnesium ion binding site [ion binding]; other site 224914000047 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 224914000048 ParB-like nuclease domain; Region: ParB; smart00470 224914000049 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 224914000050 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 224914000051 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 224914000052 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224914000053 Walker A/P-loop; other site 224914000054 ATP binding site [chemical binding]; other site 224914000055 Q-loop/lid; other site 224914000056 ABC transporter signature motif; other site 224914000057 Walker B; other site 224914000058 D-loop; other site 224914000059 H-loop/switch region; other site 224914000060 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 224914000061 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 224914000062 TM-ABC transporter signature motif; other site 224914000063 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 224914000064 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 224914000065 zinc binding site [ion binding]; other site 224914000066 putative ligand binding site [chemical binding]; other site 224914000067 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 224914000068 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 224914000069 Protein of unknown function (DUF993); Region: DUF993; pfam06187 224914000070 Transcriptional regulators [Transcription]; Region: PurR; COG1609 224914000071 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 224914000072 DNA binding site [nucleotide binding] 224914000073 domain linker motif; other site 224914000074 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 224914000075 putative dimerization interface [polypeptide binding]; other site 224914000076 putative ligand binding site [chemical binding]; other site 224914000077 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 224914000078 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 224914000079 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 224914000080 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 224914000081 Coenzyme A transferase; Region: CoA_trans; smart00882 224914000082 Coenzyme A transferase; Region: CoA_trans; cl17247 224914000083 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 224914000084 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 224914000085 substrate binding site [chemical binding]; other site 224914000086 oxyanion hole (OAH) forming residues; other site 224914000087 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 224914000088 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 224914000089 oxyanion hole (OAH) forming residues; other site 224914000090 trimer interface [polypeptide binding]; other site 224914000091 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 224914000092 Gluconobacter oxydans L-sorbosone dehydrogenase-like; Region: ALDH_SNDH; cd07118 224914000093 NAD(P) binding site [chemical binding]; other site 224914000094 catalytic residues [active] 224914000095 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 224914000096 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 224914000097 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 224914000098 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 224914000099 NAD(P) binding site [chemical binding]; other site 224914000100 active site 224914000101 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 224914000102 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 224914000103 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 224914000104 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 224914000105 Domain of unknown function (DUF4354); Region: DUF4354; pfam14263 224914000106 Uncharacterized conserved protein [Function unknown]; Region: COG3791 224914000107 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 224914000108 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 224914000109 NAD(P) binding site [chemical binding]; other site 224914000110 active site 224914000111 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 224914000112 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 224914000113 metal binding site [ion binding]; metal-binding site 224914000114 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 224914000115 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 224914000116 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 224914000117 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 224914000118 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 224914000119 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 224914000120 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 224914000121 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 224914000122 CPxP motif; other site 224914000123 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 224914000124 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 224914000125 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 224914000126 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 224914000127 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 224914000128 active site 224914000129 DNA binding site [nucleotide binding] 224914000130 Int/Topo IB signature motif; other site 224914000131 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 224914000132 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 224914000133 ADP binding site [chemical binding]; other site 224914000134 magnesium binding site [ion binding]; other site 224914000135 putative shikimate binding site; other site 224914000136 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 224914000137 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 224914000138 active site 224914000139 dimer interface [polypeptide binding]; other site 224914000140 metal binding site [ion binding]; metal-binding site 224914000141 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 224914000142 Domain of unknown function DUF21; Region: DUF21; pfam01595 224914000143 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 224914000144 Transporter associated domain; Region: CorC_HlyC; smart01091 224914000145 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 224914000146 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 224914000147 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 224914000148 HSP70 interaction site [polypeptide binding]; other site 224914000149 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 224914000150 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 224914000151 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 224914000152 Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]; Region: CobT; COG4547 224914000153 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 224914000154 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 224914000155 metal ion-dependent adhesion site (MIDAS); other site 224914000156 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 224914000157 metal-binding site [ion binding] 224914000158 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 224914000159 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 224914000160 metal-binding site [ion binding] 224914000161 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 224914000162 Soluble P-type ATPase [General function prediction only]; Region: COG4087 224914000163 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 224914000164 DNA binding residues [nucleotide binding] 224914000165 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 224914000166 dimer interface [polypeptide binding]; other site 224914000167 putative metal binding site [ion binding]; other site 224914000168 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 224914000169 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 224914000170 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 224914000171 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 224914000172 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 224914000173 Autotransporter beta-domain; Region: Autotransporter; smart00869 224914000174 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 224914000175 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 224914000176 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 224914000177 active site 224914000178 phosphorylation site [posttranslational modification] 224914000179 intermolecular recognition site; other site 224914000180 dimerization interface [polypeptide binding]; other site 224914000181 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 224914000182 DNA binding site [nucleotide binding] 224914000183 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 224914000184 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 224914000185 ligand binding site [chemical binding]; other site 224914000186 flexible hinge region; other site 224914000187 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 224914000188 putative catalytic site [active] 224914000189 putative phosphate binding site [ion binding]; other site 224914000190 active site 224914000191 metal binding site A [ion binding]; metal-binding site 224914000192 DNA binding site [nucleotide binding] 224914000193 putative AP binding site [nucleotide binding]; other site 224914000194 putative metal binding site B [ion binding]; other site 224914000195 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 224914000196 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 224914000197 aquaporin Z; Provisional; Region: PRK05420 224914000198 amphipathic channel; other site 224914000199 Asn-Pro-Ala signature motifs; other site 224914000200 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 224914000201 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 224914000202 Walker A/P-loop; other site 224914000203 ATP binding site [chemical binding]; other site 224914000204 Q-loop/lid; other site 224914000205 ABC transporter signature motif; other site 224914000206 Walker B; other site 224914000207 D-loop; other site 224914000208 H-loop/switch region; other site 224914000209 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 224914000210 Uncharacterized conserved protein [Function unknown]; Region: COG1434 224914000211 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 224914000212 putative active site [active] 224914000213 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 224914000214 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 224914000215 putative acyl-acceptor binding pocket; other site 224914000216 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 224914000217 dimer interface [polypeptide binding]; other site 224914000218 substrate binding site [chemical binding]; other site 224914000219 metal binding sites [ion binding]; metal-binding site 224914000220 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 224914000221 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 224914000222 putative active site pocket [active] 224914000223 dimerization interface [polypeptide binding]; other site 224914000224 putative catalytic residue [active] 224914000225 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 224914000226 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 224914000227 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 224914000228 prephenate dehydrogenase; Validated; Region: PRK08507 224914000229 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 224914000230 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 224914000231 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914000232 homodimer interface [polypeptide binding]; other site 224914000233 catalytic residue [active] 224914000234 Methyltransferase domain; Region: Methyltransf_23; pfam13489 224914000235 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 224914000236 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 224914000237 active site 224914000238 TIGR02302 family protein; Region: aProt_lowcomp 224914000239 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 224914000240 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 224914000241 active site 224914000242 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 224914000243 substrate binding site [chemical binding]; other site 224914000244 catalytic residues [active] 224914000245 dimer interface [polypeptide binding]; other site 224914000246 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 224914000247 argininosuccinate lyase; Provisional; Region: PRK00855 224914000248 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 224914000249 active sites [active] 224914000250 tetramer interface [polypeptide binding]; other site 224914000251 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 224914000252 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 224914000253 catalytic residues [active] 224914000254 hypothetical protein; Validated; Region: PRK00124 224914000255 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 224914000256 short chain dehydrogenase; Provisional; Region: PRK05993 224914000257 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 224914000258 NADP binding site [chemical binding]; other site 224914000259 active site 224914000260 steroid binding site; other site 224914000261 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 224914000262 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 224914000263 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 224914000264 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 224914000265 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 224914000266 active site 224914000267 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 224914000268 Ligand Binding Site [chemical binding]; other site 224914000269 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 224914000270 Ligand binding site [chemical binding]; other site 224914000271 Electron transfer flavoprotein domain; Region: ETF; pfam01012 224914000272 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 224914000273 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 224914000274 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 224914000275 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 224914000276 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 224914000277 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 224914000278 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 224914000279 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 224914000280 dimer interface [polypeptide binding]; other site 224914000281 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914000282 catalytic residue [active] 224914000283 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 224914000284 Ligand Binding Site [chemical binding]; other site 224914000285 methionine gamma-lyase; Validated; Region: PRK07049 224914000286 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 224914000287 homodimer interface [polypeptide binding]; other site 224914000288 substrate-cofactor binding pocket; other site 224914000289 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914000290 catalytic residue [active] 224914000291 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 224914000292 D-galactonate transporter; Region: 2A0114; TIGR00893 224914000293 putative substrate translocation pore; other site 224914000294 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 224914000295 active site 224914000296 homotetramer interface [polypeptide binding]; other site 224914000297 homodimer interface [polypeptide binding]; other site 224914000298 Transcriptional regulators [Transcription]; Region: GntR; COG1802 224914000299 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224914000300 DNA-binding site [nucleotide binding]; DNA binding site 224914000301 FCD domain; Region: FCD; pfam07729 224914000302 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 224914000303 active site 224914000304 homotetramer interface [polypeptide binding]; other site 224914000305 homodimer interface [polypeptide binding]; other site 224914000306 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 224914000307 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 224914000308 Walker A/P-loop; other site 224914000309 ATP binding site [chemical binding]; other site 224914000310 Q-loop/lid; other site 224914000311 ABC transporter signature motif; other site 224914000312 Walker B; other site 224914000313 D-loop; other site 224914000314 H-loop/switch region; other site 224914000315 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 224914000316 Aspartase; Region: Aspartase; cd01357 224914000317 active sites [active] 224914000318 tetramer interface [polypeptide binding]; other site 224914000319 agmatinase; Region: agmatinase; TIGR01230 224914000320 Agmatinase and related proteins; Region: Agmatinase_like_1; cd11589 224914000321 oligomer interface [polypeptide binding]; other site 224914000322 active site 224914000323 Mn binding site [ion binding]; other site 224914000324 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 224914000325 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 224914000326 Walker A/P-loop; other site 224914000327 ATP binding site [chemical binding]; other site 224914000328 Q-loop/lid; other site 224914000329 ABC transporter signature motif; other site 224914000330 Walker B; other site 224914000331 D-loop; other site 224914000332 H-loop/switch region; other site 224914000333 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 224914000334 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914000335 dimer interface [polypeptide binding]; other site 224914000336 conserved gate region; other site 224914000337 putative PBP binding loops; other site 224914000338 ABC-ATPase subunit interface; other site 224914000339 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914000340 dimer interface [polypeptide binding]; other site 224914000341 conserved gate region; other site 224914000342 putative PBP binding loops; other site 224914000343 ABC-ATPase subunit interface; other site 224914000344 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 224914000345 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 224914000346 membrane-bound complex binding site; other site 224914000347 hinge residues; other site 224914000348 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 224914000349 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224914000350 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224914000351 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 224914000352 dimerization interface [polypeptide binding]; other site 224914000353 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 224914000354 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 224914000355 Sulfatase; Region: Sulfatase; pfam00884 224914000356 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 224914000357 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 224914000358 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 224914000359 DEAD/DEAH box helicase; Region: DEAD; pfam00270 224914000360 ATP binding site [chemical binding]; other site 224914000361 putative Mg++ binding site [ion binding]; other site 224914000362 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 224914000363 SEC-C motif; Region: SEC-C; pfam02810 224914000364 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03002 224914000365 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 224914000366 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 224914000367 heterotetramer interface [polypeptide binding]; other site 224914000368 active site pocket [active] 224914000369 cleavage site 224914000370 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224914000371 Coenzyme A binding pocket [chemical binding]; other site 224914000372 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 224914000373 active site 224914000374 8-oxo-dGMP binding site [chemical binding]; other site 224914000375 nudix motif; other site 224914000376 metal binding site [ion binding]; metal-binding site 224914000377 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 224914000378 intracellular septation protein A; Reviewed; Region: PRK00259 224914000379 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 224914000380 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 224914000381 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 224914000382 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 224914000383 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 224914000384 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 224914000385 FeS/SAM binding site; other site 224914000386 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 224914000387 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 224914000388 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 224914000389 Protease inhibitor Inh; Region: Inh; pfam02974 224914000390 Predicted ATPase [General function prediction only]; Region: COG1485 224914000391 malate dehydrogenase; Reviewed; Region: PRK06223 224914000392 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 224914000393 NAD(P) binding site [chemical binding]; other site 224914000394 dimer interface [polypeptide binding]; other site 224914000395 tetramer (dimer of dimers) interface [polypeptide binding]; other site 224914000396 substrate binding site [chemical binding]; other site 224914000397 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 224914000398 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 224914000399 CoA-ligase; Region: Ligase_CoA; pfam00549 224914000400 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 224914000401 CoA binding domain; Region: CoA_binding; smart00881 224914000402 CoA-ligase; Region: Ligase_CoA; pfam00549 224914000403 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 224914000404 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 224914000405 TPP-binding site [chemical binding]; other site 224914000406 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 224914000407 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 224914000408 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 224914000409 E3 interaction surface; other site 224914000410 lipoyl attachment site [posttranslational modification]; other site 224914000411 e3 binding domain; Region: E3_binding; pfam02817 224914000412 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 224914000413 Predicted membrane protein [Function unknown]; Region: COG3686 224914000414 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 224914000415 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 224914000416 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 224914000417 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 224914000418 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 224914000419 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 224914000420 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 224914000421 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 224914000422 active site 224914000423 DNA binding site [nucleotide binding] 224914000424 Int/Topo IB signature motif; other site 224914000425 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 224914000426 RimM N-terminal domain; Region: RimM; pfam01782 224914000427 PRC-barrel domain; Region: PRC; pfam05239 224914000428 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 224914000429 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 224914000430 dimerization interface [polypeptide binding]; other site 224914000431 putative DNA binding site [nucleotide binding]; other site 224914000432 putative Zn2+ binding site [ion binding]; other site 224914000433 NIPSNAP; Region: NIPSNAP; pfam07978 224914000434 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 224914000435 Cytosine/uracil/thiamine/allantoin permeases [Nucleotide transport and metabolism / Coenzyme metabolism]; Region: FUI1; COG1953 224914000436 Na binding site [ion binding]; other site 224914000437 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 224914000438 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 224914000439 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 224914000440 substrate binding site [chemical binding]; other site 224914000441 ligand binding site [chemical binding]; other site 224914000442 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 224914000443 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224914000444 Coenzyme A binding pocket [chemical binding]; other site 224914000445 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 224914000446 Iron-sulfur protein interface; other site 224914000447 proximal quinone binding site [chemical binding]; other site 224914000448 SdhD (CybS) interface [polypeptide binding]; other site 224914000449 proximal heme binding site [chemical binding]; other site 224914000450 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 224914000451 putative SdhC subunit interface [polypeptide binding]; other site 224914000452 putative proximal heme binding site [chemical binding]; other site 224914000453 putative Iron-sulfur protein interface [polypeptide binding]; other site 224914000454 putative proximal quinone binding site; other site 224914000455 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 224914000456 L-aspartate oxidase; Provisional; Region: PRK06175 224914000457 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 224914000458 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 224914000459 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 224914000460 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 224914000461 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 224914000462 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 224914000463 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 224914000464 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 224914000465 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 224914000466 active site 224914000467 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 224914000468 catalytic triad [active] 224914000469 dimer interface [polypeptide binding]; other site 224914000470 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 224914000471 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 224914000472 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 224914000473 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 224914000474 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 224914000475 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 224914000476 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224914000477 DNA-binding site [nucleotide binding]; DNA binding site 224914000478 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 224914000479 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914000480 homodimer interface [polypeptide binding]; other site 224914000481 catalytic residue [active] 224914000482 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 224914000483 EamA-like transporter family; Region: EamA; pfam00892 224914000484 EamA-like transporter family; Region: EamA; pfam00892 224914000485 Predicted methyltransferase [General function prediction only]; Region: COG3897 224914000486 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 224914000487 S-adenosylmethionine binding site [chemical binding]; other site 224914000488 Uncharacterized conserved protein [Function unknown]; Region: COG2947 224914000489 YCII-related domain; Region: YCII; cl00999 224914000490 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 224914000491 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 224914000492 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 224914000493 UGMP family protein; Validated; Region: PRK09604 224914000494 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 224914000495 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 224914000496 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 224914000497 domain interfaces; other site 224914000498 active site 224914000499 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 224914000500 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 224914000501 active site 224914000502 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 224914000503 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 224914000504 HemY protein N-terminus; Region: HemY_N; pfam07219 224914000505 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 224914000506 putative metal binding site [ion binding]; other site 224914000507 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 224914000508 putative substrate translocation pore; other site 224914000509 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 224914000510 Methyltransferase domain; Region: Methyltransf_11; pfam08241 224914000511 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 224914000512 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 224914000513 active site 224914000514 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 224914000515 GSH binding site [chemical binding]; other site 224914000516 catalytic residues [active] 224914000517 Predicted amidohydrolase [General function prediction only]; Region: COG0388 224914000518 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 224914000519 putative active site [active] 224914000520 catalytic triad [active] 224914000521 dimer interface [polypeptide binding]; other site 224914000522 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5319 224914000523 EamA-like transporter family; Region: EamA; pfam00892 224914000524 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 224914000525 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 224914000526 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 224914000527 S-adenosylmethionine binding site [chemical binding]; other site 224914000528 aspartate kinase; Reviewed; Region: PRK06635 224914000529 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 224914000530 putative nucleotide binding site [chemical binding]; other site 224914000531 putative catalytic residues [active] 224914000532 putative Mg ion binding site [ion binding]; other site 224914000533 putative aspartate binding site [chemical binding]; other site 224914000534 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 224914000535 putative allosteric regulatory site; other site 224914000536 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 224914000537 putative allosteric regulatory residue; other site 224914000538 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 224914000539 GAF domain; Region: GAF; pfam01590 224914000540 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 224914000541 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 224914000542 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 224914000543 peptide chain release factor 1; Validated; Region: prfA; PRK00591 224914000544 This domain is found in peptide chain release factors; Region: PCRF; smart00937 224914000545 RF-1 domain; Region: RF-1; pfam00472 224914000546 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 224914000547 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 224914000548 S-adenosylmethionine binding site [chemical binding]; other site 224914000549 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 224914000550 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 224914000551 Clp amino terminal domain; Region: Clp_N; pfam02861 224914000552 Clp amino terminal domain; Region: Clp_N; pfam02861 224914000553 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 224914000554 Walker A motif; other site 224914000555 ATP binding site [chemical binding]; other site 224914000556 Walker B motif; other site 224914000557 arginine finger; other site 224914000558 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 224914000559 Walker A motif; other site 224914000560 ATP binding site [chemical binding]; other site 224914000561 Walker B motif; other site 224914000562 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 224914000563 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 224914000564 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 224914000565 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 224914000566 Peptidase family M23; Region: Peptidase_M23; pfam01551 224914000567 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 224914000568 Integrase core domain; Region: rve; pfam00665 224914000569 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 224914000570 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 224914000571 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 224914000572 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 224914000573 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 224914000574 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 224914000575 YadA-like C-terminal region; Region: YadA; pfam03895 224914000576 GTPase CgtA; Reviewed; Region: obgE; PRK12299 224914000577 GTP1/OBG; Region: GTP1_OBG; pfam01018 224914000578 Obg GTPase; Region: Obg; cd01898 224914000579 G1 box; other site 224914000580 GTP/Mg2+ binding site [chemical binding]; other site 224914000581 Switch I region; other site 224914000582 G2 box; other site 224914000583 G3 box; other site 224914000584 Switch II region; other site 224914000585 G4 box; other site 224914000586 G5 box; other site 224914000587 gamma-glutamyl kinase; Provisional; Region: PRK05429 224914000588 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 224914000589 nucleotide binding site [chemical binding]; other site 224914000590 homotetrameric interface [polypeptide binding]; other site 224914000591 putative phosphate binding site [ion binding]; other site 224914000592 putative allosteric binding site; other site 224914000593 PUA domain; Region: PUA; pfam01472 224914000594 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 224914000595 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 224914000596 putative catalytic cysteine [active] 224914000597 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 224914000598 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 224914000599 active site 224914000600 (T/H)XGH motif; other site 224914000601 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 224914000602 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 224914000603 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 224914000604 Peptidase family M23; Region: Peptidase_M23; pfam01551 224914000605 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 224914000606 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 224914000607 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 224914000608 protein binding site [polypeptide binding]; other site 224914000609 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 224914000610 Catalytic dyad [active] 224914000611 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 224914000612 putative active site [active] 224914000613 Ap4A binding site [chemical binding]; other site 224914000614 nudix motif; other site 224914000615 putative metal binding site [ion binding]; other site 224914000616 Predicted membrane protein [Function unknown]; Region: COG3619 224914000617 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224914000618 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224914000619 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 224914000620 dimerization interface [polypeptide binding]; other site 224914000621 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 224914000622 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 224914000623 tetrameric interface [polypeptide binding]; other site 224914000624 NAD binding site [chemical binding]; other site 224914000625 catalytic residues [active] 224914000626 pyridoxamine kinase; Validated; Region: PRK05756 224914000627 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 224914000628 dimer interface [polypeptide binding]; other site 224914000629 pyridoxal binding site [chemical binding]; other site 224914000630 ATP binding site [chemical binding]; other site 224914000631 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 224914000632 active site clefts [active] 224914000633 zinc binding site [ion binding]; other site 224914000634 dimer interface [polypeptide binding]; other site 224914000635 lytic murein transglycosylase; Region: MltB_2; TIGR02283 224914000636 murein hydrolase B; Provisional; Region: PRK10760; cl17906 224914000637 signal recognition particle protein; Provisional; Region: PRK10867 224914000638 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 224914000639 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 224914000640 P loop; other site 224914000641 GTP binding site [chemical binding]; other site 224914000642 Signal peptide binding domain; Region: SRP_SPB; pfam02978 224914000643 chorismate mutase; Provisional; Region: PRK09239 224914000644 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 224914000645 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 224914000646 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 224914000647 Repair protein; Region: Repair_PSII; pfam04536 224914000648 Predicted membrane protein [Function unknown]; Region: COG3762 224914000649 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 224914000650 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 224914000651 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 224914000652 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 224914000653 purine monophosphate binding site [chemical binding]; other site 224914000654 dimer interface [polypeptide binding]; other site 224914000655 putative catalytic residues [active] 224914000656 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 224914000657 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 224914000658 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5360 224914000659 NusB family; Region: NusB; pfam01029 224914000660 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 224914000661 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 224914000662 S-adenosylmethionine binding site [chemical binding]; other site 224914000663 heat shock protein HtpX; Provisional; Region: PRK01345 224914000664 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 224914000665 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 224914000666 acetyl-CoA synthetase; Provisional; Region: PRK00174 224914000667 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 224914000668 active site 224914000669 CoA binding site [chemical binding]; other site 224914000670 acyl-activating enzyme (AAE) consensus motif; other site 224914000671 AMP binding site [chemical binding]; other site 224914000672 acetate binding site [chemical binding]; other site 224914000673 Usg protein, probable subunit of phosphoribosylanthranilate isomerase [Amino acid transport and metabolism]; Region: COG5425 224914000674 Predicted membrane protein [Function unknown]; Region: COG1289 224914000675 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 224914000676 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 224914000677 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 224914000678 catalytic residue [active] 224914000679 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 224914000680 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 224914000681 HIGH motif; other site 224914000682 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 224914000683 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 224914000684 active site 224914000685 KMSKS motif; other site 224914000686 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 224914000687 tRNA binding surface [nucleotide binding]; other site 224914000688 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5468 224914000689 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 224914000690 active site 224914000691 intersubunit interactions; other site 224914000692 catalytic residue [active] 224914000693 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 224914000694 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 224914000695 ATP binding site [chemical binding]; other site 224914000696 primosome assembly protein PriA; Validated; Region: PRK05580 224914000697 helicase superfamily c-terminal domain; Region: HELICc; smart00490 224914000698 nucleotide binding region [chemical binding]; other site 224914000699 ATP-binding site [chemical binding]; other site 224914000700 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 224914000701 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 224914000702 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 224914000703 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 224914000704 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 224914000705 beta subunit interaction interface [polypeptide binding]; other site 224914000706 Walker A motif; other site 224914000707 ATP binding site [chemical binding]; other site 224914000708 Walker B motif; other site 224914000709 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 224914000710 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 224914000711 core domain interface [polypeptide binding]; other site 224914000712 delta subunit interface [polypeptide binding]; other site 224914000713 epsilon subunit interface [polypeptide binding]; other site 224914000714 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 224914000715 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 224914000716 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 224914000717 alpha subunit interaction interface [polypeptide binding]; other site 224914000718 Walker A motif; other site 224914000719 ATP binding site [chemical binding]; other site 224914000720 Walker B motif; other site 224914000721 inhibitor binding site; inhibition site 224914000722 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 224914000723 F0F1-type ATP synthase, epsilon subunit (mitochondrial delta subunit) [Energy production and conversion]; Region: AtpC; COG0355 224914000724 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 224914000725 gamma subunit interface [polypeptide binding]; other site 224914000726 epsilon subunit interface [polypeptide binding]; other site 224914000727 LBP interface [polypeptide binding]; other site 224914000728 MarR family; Region: MarR; pfam01047 224914000729 transcriptional regulator SlyA; Provisional; Region: PRK03573 224914000730 Transcriptional regulators [Transcription]; Region: FadR; COG2186 224914000731 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224914000732 DNA-binding site [nucleotide binding]; DNA binding site 224914000733 FCD domain; Region: FCD; pfam07729 224914000734 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 224914000735 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 224914000736 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 224914000737 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 224914000738 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 224914000739 TM-ABC transporter signature motif; other site 224914000740 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 224914000741 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 224914000742 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 224914000743 TM-ABC transporter signature motif; other site 224914000744 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 224914000745 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 224914000746 Walker A/P-loop; other site 224914000747 ATP binding site [chemical binding]; other site 224914000748 Q-loop/lid; other site 224914000749 ABC transporter signature motif; other site 224914000750 Walker B; other site 224914000751 D-loop; other site 224914000752 H-loop/switch region; other site 224914000753 Uncharacterized conserved protein [Function unknown]; Region: COG3743 224914000754 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 224914000755 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 224914000756 Walker A/P-loop; other site 224914000757 ATP binding site [chemical binding]; other site 224914000758 Q-loop/lid; other site 224914000759 ABC transporter signature motif; other site 224914000760 Walker B; other site 224914000761 D-loop; other site 224914000762 H-loop/switch region; other site 224914000763 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 224914000764 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 224914000765 dimerization interface [polypeptide binding]; other site 224914000766 ligand binding site [chemical binding]; other site 224914000767 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 224914000768 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 224914000769 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 224914000770 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 224914000771 pyruvate carboxylase; Reviewed; Region: PRK12999 224914000772 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 224914000773 ATP-grasp domain; Region: ATP-grasp_4; cl17255 224914000774 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 224914000775 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 224914000776 active site 224914000777 catalytic residues [active] 224914000778 metal binding site [ion binding]; metal-binding site 224914000779 homodimer binding site [polypeptide binding]; other site 224914000780 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 224914000781 carboxyltransferase (CT) interaction site; other site 224914000782 biotinylation site [posttranslational modification]; other site 224914000783 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 224914000784 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224914000785 putative substrate translocation pore; other site 224914000786 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 224914000787 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 224914000788 NAD(P) binding site [chemical binding]; other site 224914000789 active site 224914000790 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 224914000791 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 224914000792 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 224914000793 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 224914000794 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 224914000795 substrate binding pocket [chemical binding]; other site 224914000796 chain length determination region; other site 224914000797 substrate-Mg2+ binding site; other site 224914000798 catalytic residues [active] 224914000799 aspartate-rich region 1; other site 224914000800 active site lid residues [active] 224914000801 aspartate-rich region 2; other site 224914000802 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 224914000803 Transglycosylase; Region: Transgly; pfam00912 224914000804 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 224914000805 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 224914000806 putative acyltransferase; Provisional; Region: PRK05790 224914000807 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 224914000808 dimer interface [polypeptide binding]; other site 224914000809 active site 224914000810 DEAD/DEAH box helicase; Region: DEAD; pfam00270 224914000811 ATP binding site [chemical binding]; other site 224914000812 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 224914000813 putative Mg++ binding site [ion binding]; other site 224914000814 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 224914000815 nucleotide binding region [chemical binding]; other site 224914000816 ATP-binding site [chemical binding]; other site 224914000817 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 224914000818 RNA binding surface [nucleotide binding]; other site 224914000819 Ferredoxin [Energy production and conversion]; Region: COG1146 224914000820 4Fe-4S binding domain; Region: Fer4; pfam00037 224914000821 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 224914000822 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 224914000823 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 224914000824 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 224914000825 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 224914000826 DNA binding residues [nucleotide binding] 224914000827 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 224914000828 MOSC domain; Region: MOSC; pfam03473 224914000829 3-alpha domain; Region: 3-alpha; pfam03475 224914000830 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 224914000831 Peptidase family M48; Region: Peptidase_M48; pfam01435 224914000832 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 224914000833 ATP-binding cassette domain of the thiamine transport system; Region: ABC_ThiQ_thiamine_transporter; cd03298 224914000834 Walker A/P-loop; other site 224914000835 ATP binding site [chemical binding]; other site 224914000836 Q-loop/lid; other site 224914000837 ABC transporter signature motif; other site 224914000838 Walker B; other site 224914000839 D-loop; other site 224914000840 H-loop/switch region; other site 224914000841 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 224914000842 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914000843 dimer interface [polypeptide binding]; other site 224914000844 conserved gate region; other site 224914000845 putative PBP binding loops; other site 224914000846 ABC-ATPase subunit interface; other site 224914000847 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914000848 dimer interface [polypeptide binding]; other site 224914000849 conserved gate region; other site 224914000850 putative PBP binding loops; other site 224914000851 ABC-ATPase subunit interface; other site 224914000852 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 224914000853 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 224914000854 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 224914000855 Thiamine pyrophosphokinase; Region: TPK; cd07995 224914000856 active site 224914000857 dimerization interface [polypeptide binding]; other site 224914000858 thiamine binding site [chemical binding]; other site 224914000859 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 224914000860 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 224914000861 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 224914000862 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3750 224914000863 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 224914000864 Predicted integral membrane protein [Function unknown]; Region: COG5480 224914000865 pyruvate kinase; Provisional; Region: PRK06247 224914000866 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 224914000867 domain interfaces; other site 224914000868 active site 224914000869 TPR repeat; Region: TPR_11; pfam13414 224914000870 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 224914000871 TPR motif; other site 224914000872 binding surface 224914000873 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 224914000874 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 224914000875 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 224914000876 NAD binding site [chemical binding]; other site 224914000877 ATP-grasp domain; Region: ATP-grasp; pfam02222 224914000878 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 224914000879 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 224914000880 Uncharacterized small protein [Function unknown]; Region: COG5570 224914000881 putative MFS family transporter protein; Provisional; Region: PRK03633 224914000882 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 224914000883 putative substrate translocation pore; other site 224914000884 Uncharacterized small protein containing a coiled-coil domain [Function unknown]; Region: COG5509 224914000885 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 224914000886 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 224914000887 NAD(P) binding site [chemical binding]; other site 224914000888 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 224914000889 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 224914000890 CoenzymeA binding site [chemical binding]; other site 224914000891 subunit interaction site [polypeptide binding]; other site 224914000892 PHB binding site; other site 224914000893 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 224914000894 Predicted transcriptional regulator [Transcription]; Region: COG2378 224914000895 HTH domain; Region: HTH_11; pfam08279 224914000896 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 224914000897 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 224914000898 acyl-activating enzyme (AAE) consensus motif; other site 224914000899 putative AMP binding site [chemical binding]; other site 224914000900 putative active site [active] 224914000901 putative CoA binding site [chemical binding]; other site 224914000902 Phosphoglycerate kinase; Region: PGK; pfam00162 224914000903 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 224914000904 substrate binding site [chemical binding]; other site 224914000905 hinge regions; other site 224914000906 ADP binding site [chemical binding]; other site 224914000907 catalytic site [active] 224914000908 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 224914000909 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 224914000910 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 224914000911 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 224914000912 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 224914000913 TPP-binding site [chemical binding]; other site 224914000914 dimer interface [polypeptide binding]; other site 224914000915 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 224914000916 PYR/PP interface [polypeptide binding]; other site 224914000917 dimer interface [polypeptide binding]; other site 224914000918 TPP binding site [chemical binding]; other site 224914000919 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 224914000920 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 224914000921 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 224914000922 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 224914000923 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 224914000924 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 224914000925 putative active site [active] 224914000926 metal binding site [ion binding]; metal-binding site 224914000927 homodimer binding site [polypeptide binding]; other site 224914000928 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 224914000929 Uncharacterized conserved protein [Function unknown]; Region: COG3543 224914000930 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 224914000931 Transcriptional regulators [Transcription]; Region: GntR; COG1802 224914000932 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224914000933 DNA-binding site [nucleotide binding]; DNA binding site 224914000934 FCD domain; Region: FCD; pfam07729 224914000935 hypothetical protein; Validated; Region: PRK00110 224914000936 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 224914000937 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 224914000938 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 224914000939 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224914000940 Walker A/P-loop; other site 224914000941 ATP binding site [chemical binding]; other site 224914000942 Q-loop/lid; other site 224914000943 ABC transporter signature motif; other site 224914000944 Walker B; other site 224914000945 D-loop; other site 224914000946 H-loop/switch region; other site 224914000947 hypothetical protein; Validated; Region: PRK09039 224914000948 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 224914000949 ligand binding site [chemical binding]; other site 224914000950 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 224914000951 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 224914000952 active site 224914000953 dimerization interface [polypeptide binding]; other site 224914000954 elongation factor P; Validated; Region: PRK00529 224914000955 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 224914000956 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 224914000957 RNA binding site [nucleotide binding]; other site 224914000958 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 224914000959 RNA binding site [nucleotide binding]; other site 224914000960 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 224914000961 Sel1-like repeats; Region: SEL1; smart00671 224914000962 Sel1-like repeats; Region: SEL1; smart00671 224914000963 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 224914000964 active site 224914000965 thiamine phosphate binding site [chemical binding]; other site 224914000966 pyrophosphate binding site [ion binding]; other site 224914000967 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4645 224914000968 Acyltransferase family; Region: Acyl_transf_3; pfam01757 224914000969 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5317 224914000970 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 224914000971 active site 224914000972 putative DNA-binding cleft [nucleotide binding]; other site 224914000973 dimer interface [polypeptide binding]; other site 224914000974 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 224914000975 RuvA N terminal domain; Region: RuvA_N; pfam01330 224914000976 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 224914000977 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 224914000978 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 224914000979 Walker A motif; other site 224914000980 ATP binding site [chemical binding]; other site 224914000981 Walker B motif; other site 224914000982 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 224914000983 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 224914000984 active site 224914000985 TolQ protein; Region: tolQ; TIGR02796 224914000986 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 224914000987 TolR protein; Region: tolR; TIGR02801 224914000988 translocation protein TolB; Provisional; Region: tolB; PRK05137 224914000989 TolB amino-terminal domain; Region: TolB_N; pfam04052 224914000990 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 224914000991 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 224914000992 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 224914000993 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 224914000994 ligand binding site [chemical binding]; other site 224914000995 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 224914000996 Tetratricopeptide repeat; Region: TPR_6; pfam13174 224914000997 Tetratricopeptide repeat; Region: TPR_6; pfam13174 224914000998 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 224914000999 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 224914001000 FtsH Extracellular; Region: FtsH_ext; pfam06480 224914001001 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 224914001002 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 224914001003 Walker A motif; other site 224914001004 ATP binding site [chemical binding]; other site 224914001005 Walker B motif; other site 224914001006 arginine finger; other site 224914001007 Peptidase family M41; Region: Peptidase_M41; pfam01434 224914001008 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 224914001009 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 224914001010 active site 224914001011 substrate binding site [chemical binding]; other site 224914001012 metal binding site [ion binding]; metal-binding site 224914001013 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 224914001014 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 224914001015 Sodium Bile acid symporter family; Region: SBF; pfam01758 224914001016 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cd01494 224914001017 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 224914001018 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 224914001019 catalytic residue [active] 224914001020 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 224914001021 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 224914001022 ligand binding site [chemical binding]; other site 224914001023 NAD binding site [chemical binding]; other site 224914001024 dimerization interface [polypeptide binding]; other site 224914001025 catalytic site [active] 224914001026 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 224914001027 putative L-serine binding site [chemical binding]; other site 224914001028 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224914001029 Coenzyme A binding pocket [chemical binding]; other site 224914001030 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 224914001031 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 224914001032 GDP-binding site [chemical binding]; other site 224914001033 ACT binding site; other site 224914001034 IMP binding site; other site 224914001035 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 224914001036 metabolite-proton symporter; Region: 2A0106; TIGR00883 224914001037 putative substrate translocation pore; other site 224914001038 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 224914001039 diiron binding motif [ion binding]; other site 224914001040 Uncharacterized conserved protein [Function unknown]; Region: COG1633 224914001041 CCC1-related protein family; Region: CCC1_like_1; cd02437 224914001042 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 224914001043 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 224914001044 putative dimer interface [polypeptide binding]; other site 224914001045 putative active site [active] 224914001046 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 224914001047 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 224914001048 dimerization interface [polypeptide binding]; other site 224914001049 putative DNA binding site [nucleotide binding]; other site 224914001050 putative Zn2+ binding site [ion binding]; other site 224914001051 AsnC family; Region: AsnC_trans_reg; pfam01037 224914001052 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 224914001053 trimer interface [polypeptide binding]; other site 224914001054 active site 224914001055 macrolide transporter subunit MacA; Provisional; Region: PRK11578 224914001056 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 224914001057 HlyD family secretion protein; Region: HlyD_3; pfam13437 224914001058 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 224914001059 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 224914001060 Walker A/P-loop; other site 224914001061 ATP binding site [chemical binding]; other site 224914001062 Q-loop/lid; other site 224914001063 ABC transporter signature motif; other site 224914001064 Walker B; other site 224914001065 D-loop; other site 224914001066 H-loop/switch region; other site 224914001067 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 224914001068 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 224914001069 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 224914001070 FtsX-like permease family; Region: FtsX; pfam02687 224914001071 Predicted periplasmic protein [Function unknown]; Region: COG3698 224914001072 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 224914001073 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 224914001074 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 224914001075 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 224914001076 TonB system transport protein ExbD, group 1; Region: ExbD_1; TIGR02803 224914001077 tonB-system energizer ExbB; Region: exbB; TIGR02797 224914001078 PRC-barrel domain; Region: PRC; pfam05239 224914001079 PRC-barrel domain; Region: PRC; pfam05239 224914001080 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 224914001081 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 224914001082 Histidine kinase; Region: HisKA_2; pfam07568 224914001083 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 224914001084 ATP binding site [chemical binding]; other site 224914001085 Mg2+ binding site [ion binding]; other site 224914001086 G-X-G motif; other site 224914001087 RNA polymerase sigma factor; Provisional; Region: PRK12516 224914001088 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 224914001089 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 224914001090 DNA binding residues [nucleotide binding] 224914001091 two-component response regulator; Provisional; Region: PRK09191 224914001092 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 224914001093 active site 224914001094 phosphorylation site [posttranslational modification] 224914001095 intermolecular recognition site; other site 224914001096 dimerization interface [polypeptide binding]; other site 224914001097 PAS fold; Region: PAS_4; pfam08448 224914001098 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 224914001099 HWE histidine kinase; Region: HWE_HK; pfam07536 224914001100 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 224914001101 metal binding site 2 [ion binding]; metal-binding site 224914001102 putative DNA binding helix; other site 224914001103 metal binding site 1 [ion binding]; metal-binding site 224914001104 dimer interface [polypeptide binding]; other site 224914001105 structural Zn2+ binding site [ion binding]; other site 224914001106 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 224914001107 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 224914001108 RNA binding surface [nucleotide binding]; other site 224914001109 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 224914001110 active site 224914001111 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 224914001112 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 224914001113 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 224914001114 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 224914001115 DNA binding residues [nucleotide binding] 224914001116 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 224914001117 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224914001118 Coenzyme A binding pocket [chemical binding]; other site 224914001119 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 224914001120 active site 224914001121 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 224914001122 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 224914001123 active site 224914001124 HIGH motif; other site 224914001125 nucleotide binding site [chemical binding]; other site 224914001126 active site 224914001127 KMSKS motif; other site 224914001128 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 224914001129 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 224914001130 helix-hairpin-helix signature motif; other site 224914001131 substrate binding pocket [chemical binding]; other site 224914001132 active site 224914001133 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 224914001134 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 224914001135 active site 224914001136 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 224914001137 Predicted membrane protein [Function unknown]; Region: COG1238 224914001138 succinic semialdehyde dehydrogenase; Region: PLN02278 224914001139 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 224914001140 tetramerization interface [polypeptide binding]; other site 224914001141 NAD(P) binding site [chemical binding]; other site 224914001142 catalytic residues [active] 224914001143 Transcriptional regulator [Transcription]; Region: IclR; COG1414 224914001144 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 224914001145 Bacterial transcriptional regulator; Region: IclR; pfam01614 224914001146 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 224914001147 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 224914001148 Uncharacterized conserved protein [Function unknown]; Region: COG5591 224914001149 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 224914001150 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 224914001151 Walker A/P-loop; other site 224914001152 ATP binding site [chemical binding]; other site 224914001153 Q-loop/lid; other site 224914001154 ABC transporter signature motif; other site 224914001155 Walker B; other site 224914001156 D-loop; other site 224914001157 H-loop/switch region; other site 224914001158 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 224914001159 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 224914001160 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 224914001161 TM-ABC transporter signature motif; other site 224914001162 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 224914001163 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 224914001164 putative ligand binding site [chemical binding]; other site 224914001165 classical (c) SDRs; Region: SDR_c; cd05233 224914001166 NAD(P) binding site [chemical binding]; other site 224914001167 classical (c) SDRs; Region: SDR_c; cd05233 224914001168 active site 224914001169 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 224914001170 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 224914001171 DAK2 domain; Region: Dak2; pfam02734 224914001172 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 224914001173 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 224914001174 DNA binding residues [nucleotide binding] 224914001175 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 224914001176 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 224914001177 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 224914001178 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 224914001179 DAK2 domain; Region: Dak2; pfam02734 224914001180 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 224914001181 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 224914001182 active site 224914001183 nucleophile elbow; other site 224914001184 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 224914001185 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 224914001186 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 224914001187 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 224914001188 7 alpha-hydroxysteroid dehydrogenase (7 alpha-HSDH), classical (c) SDRs; Region: 7_alpha_HSDH_SDR_c; cd05365 224914001189 NAD binding site [chemical binding]; other site 224914001190 substrate binding site [chemical binding]; other site 224914001191 homotetramer interface [polypeptide binding]; other site 224914001192 homodimer interface [polypeptide binding]; other site 224914001193 active site 224914001194 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 224914001195 7 alpha-hydroxysteroid dehydrogenase (7 alpha-HSDH), classical (c) SDRs; Region: 7_alpha_HSDH_SDR_c; cd05365 224914001196 NAD binding site [chemical binding]; other site 224914001197 substrate binding site [chemical binding]; other site 224914001198 homotetramer interface [polypeptide binding]; other site 224914001199 homodimer interface [polypeptide binding]; other site 224914001200 active site 224914001201 isocitrate lyase; Provisional; Region: PRK15063 224914001202 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 224914001203 tetramer interface [polypeptide binding]; other site 224914001204 active site 224914001205 Mg2+/Mn2+ binding site [ion binding]; other site 224914001206 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 224914001207 Domain of unknown function (DUF955); Region: DUF955; pfam06114 224914001208 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 224914001209 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 224914001210 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 224914001211 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 224914001212 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 224914001213 Walker A/P-loop; other site 224914001214 ATP binding site [chemical binding]; other site 224914001215 Q-loop/lid; other site 224914001216 ABC transporter signature motif; other site 224914001217 Walker B; other site 224914001218 D-loop; other site 224914001219 H-loop/switch region; other site 224914001220 TOBE domain; Region: TOBE_2; pfam08402 224914001221 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914001222 dimer interface [polypeptide binding]; other site 224914001223 conserved gate region; other site 224914001224 putative PBP binding loops; other site 224914001225 ABC-ATPase subunit interface; other site 224914001226 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 224914001227 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914001228 dimer interface [polypeptide binding]; other site 224914001229 conserved gate region; other site 224914001230 putative PBP binding loops; other site 224914001231 ABC-ATPase subunit interface; other site 224914001232 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 224914001233 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 224914001234 PAS domain; Region: PAS_8; pfam13188 224914001235 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 224914001236 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 224914001237 putative active site [active] 224914001238 heme pocket [chemical binding]; other site 224914001239 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 224914001240 dimer interface [polypeptide binding]; other site 224914001241 phosphorylation site [posttranslational modification] 224914001242 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 224914001243 ATP binding site [chemical binding]; other site 224914001244 Mg2+ binding site [ion binding]; other site 224914001245 G-X-G motif; other site 224914001246 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 224914001247 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 224914001248 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 224914001249 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 224914001250 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 224914001251 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 224914001252 inhibitor-cofactor binding pocket; inhibition site 224914001253 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914001254 catalytic residue [active] 224914001255 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 224914001256 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 224914001257 active site 224914001258 phosphorylation site [posttranslational modification] 224914001259 intermolecular recognition site; other site 224914001260 dimerization interface [polypeptide binding]; other site 224914001261 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 224914001262 DNA binding site [nucleotide binding] 224914001263 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5385 224914001264 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5400 224914001265 Predicted acetyltransferase [General function prediction only]; Region: COG2388 224914001266 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 224914001267 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 224914001268 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 224914001269 Ligand Binding Site [chemical binding]; other site 224914001270 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 224914001271 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 224914001272 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 224914001273 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 224914001274 dimerization interface [polypeptide binding]; other site 224914001275 putative DNA binding site [nucleotide binding]; other site 224914001276 putative Zn2+ binding site [ion binding]; other site 224914001277 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 224914001278 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 224914001279 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 224914001280 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 224914001281 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 224914001282 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 224914001283 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914001284 dimer interface [polypeptide binding]; other site 224914001285 conserved gate region; other site 224914001286 putative PBP binding loops; other site 224914001287 ABC-ATPase subunit interface; other site 224914001288 dipeptide transporter; Provisional; Region: PRK10913 224914001289 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914001290 dimer interface [polypeptide binding]; other site 224914001291 conserved gate region; other site 224914001292 putative PBP binding loops; other site 224914001293 ABC-ATPase subunit interface; other site 224914001294 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 224914001295 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 224914001296 Walker A/P-loop; other site 224914001297 ATP binding site [chemical binding]; other site 224914001298 Q-loop/lid; other site 224914001299 ABC transporter signature motif; other site 224914001300 Walker B; other site 224914001301 D-loop; other site 224914001302 H-loop/switch region; other site 224914001303 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 224914001304 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 224914001305 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 224914001306 Walker A/P-loop; other site 224914001307 ATP binding site [chemical binding]; other site 224914001308 Q-loop/lid; other site 224914001309 ABC transporter signature motif; other site 224914001310 Walker B; other site 224914001311 D-loop; other site 224914001312 H-loop/switch region; other site 224914001313 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 224914001314 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 224914001315 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224914001316 Walker A/P-loop; other site 224914001317 ATP binding site [chemical binding]; other site 224914001318 Q-loop/lid; other site 224914001319 ABC transporter signature motif; other site 224914001320 Walker B; other site 224914001321 D-loop; other site 224914001322 H-loop/switch region; other site 224914001323 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914001324 dimer interface [polypeptide binding]; other site 224914001325 conserved gate region; other site 224914001326 putative PBP binding loops; other site 224914001327 ABC-ATPase subunit interface; other site 224914001328 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 224914001329 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 224914001330 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5345 224914001331 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG5459 224914001332 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 224914001333 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224914001334 putative substrate translocation pore; other site 224914001335 Transcriptional regulators [Transcription]; Region: MarR; COG1846 224914001336 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 224914001337 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 224914001338 putative DNA binding site [nucleotide binding]; other site 224914001339 putative Zn2+ binding site [ion binding]; other site 224914001340 AsnC family; Region: AsnC_trans_reg; pfam01037 224914001341 anthranilate synthase; Provisional; Region: PRK13566 224914001342 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 224914001343 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 224914001344 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 224914001345 glutamine binding [chemical binding]; other site 224914001346 catalytic triad [active] 224914001347 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 224914001348 Cation efflux family; Region: Cation_efflux; pfam01545 224914001349 2-isopropylmalate synthase; Validated; Region: PRK03739 224914001350 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 224914001351 active site 224914001352 catalytic residues [active] 224914001353 metal binding site [ion binding]; metal-binding site 224914001354 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 224914001355 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 224914001356 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 224914001357 active site 224914001358 metal binding site [ion binding]; metal-binding site 224914001359 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_21; cd04680 224914001360 nudix motif; other site 224914001361 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 224914001362 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 224914001363 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 224914001364 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 224914001365 putative dimer interface [polypeptide binding]; other site 224914001366 N-terminal domain interface [polypeptide binding]; other site 224914001367 putative substrate binding pocket (H-site) [chemical binding]; other site 224914001368 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 224914001369 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224914001370 Coenzyme A binding pocket [chemical binding]; other site 224914001371 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 224914001372 N-terminal double-transmembrane domain; Region: two_anch; TIGR02226 224914001373 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 224914001374 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 224914001375 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 224914001376 Protein of unknown function DUF58; Region: DUF58; pfam01882 224914001377 MoxR-like ATPases [General function prediction only]; Region: COG0714 224914001378 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 224914001379 ATP binding site [chemical binding]; other site 224914001380 Walker B motif; other site 224914001381 arginine finger; other site 224914001382 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 224914001383 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 224914001384 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 224914001385 putative active site [active] 224914001386 putative CoA binding site [chemical binding]; other site 224914001387 nudix motif; other site 224914001388 metal binding site [ion binding]; metal-binding site 224914001389 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 224914001390 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 224914001391 active site 224914001392 NTP binding site [chemical binding]; other site 224914001393 metal binding triad [ion binding]; metal-binding site 224914001394 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 224914001395 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 224914001396 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 224914001397 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224914001398 Coenzyme A binding pocket [chemical binding]; other site 224914001399 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 224914001400 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 224914001401 Purine nucleoside permease [Nucleotide transport and metabolism]; Region: NUP; COG5042 224914001402 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 224914001403 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 224914001404 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 224914001405 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 224914001406 Walker A/P-loop; other site 224914001407 ATP binding site [chemical binding]; other site 224914001408 Q-loop/lid; other site 224914001409 ABC transporter signature motif; other site 224914001410 Walker B; other site 224914001411 D-loop; other site 224914001412 H-loop/switch region; other site 224914001413 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 224914001414 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 224914001415 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224914001416 Walker A/P-loop; other site 224914001417 ATP binding site [chemical binding]; other site 224914001418 Q-loop/lid; other site 224914001419 ABC transporter signature motif; other site 224914001420 Walker B; other site 224914001421 D-loop; other site 224914001422 H-loop/switch region; other site 224914001423 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 224914001424 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 224914001425 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 224914001426 [2Fe-2S] cluster binding site [ion binding]; other site 224914001427 cytochrome b; Provisional; Region: CYTB; MTH00191 224914001428 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 224914001429 Qi binding site; other site 224914001430 intrachain domain interface; other site 224914001431 interchain domain interface [polypeptide binding]; other site 224914001432 heme bH binding site [chemical binding]; other site 224914001433 heme bL binding site [chemical binding]; other site 224914001434 Qo binding site; other site 224914001435 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 224914001436 interchain domain interface [polypeptide binding]; other site 224914001437 intrachain domain interface; other site 224914001438 Qi binding site; other site 224914001439 Qo binding site; other site 224914001440 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 224914001441 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 224914001442 active site 224914001443 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 224914001444 putative active site [active] 224914001445 putative catalytic site [active] 224914001446 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 224914001447 putative active site [active] 224914001448 putative catalytic site [active] 224914001449 GTP-binding protein YchF; Reviewed; Region: PRK09601 224914001450 YchF GTPase; Region: YchF; cd01900 224914001451 G1 box; other site 224914001452 GTP/Mg2+ binding site [chemical binding]; other site 224914001453 Switch I region; other site 224914001454 G2 box; other site 224914001455 Switch II region; other site 224914001456 G3 box; other site 224914001457 G4 box; other site 224914001458 G5 box; other site 224914001459 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 224914001460 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 224914001461 putative active site [active] 224914001462 catalytic residue [active] 224914001463 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 224914001464 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 224914001465 5S rRNA interface [nucleotide binding]; other site 224914001466 CTC domain interface [polypeptide binding]; other site 224914001467 L16 interface [polypeptide binding]; other site 224914001468 HerA helicase [Replication, recombination, and repair]; Region: COG0433 224914001469 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 224914001470 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 224914001471 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 224914001472 active site 224914001473 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 224914001474 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 224914001475 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 224914001476 active site 224914001477 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 224914001478 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 224914001479 Uncharacterized conserved protein [Function unknown]; Region: COG1565 224914001480 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 224914001481 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 224914001482 Uncharacterized conserved protein [Function unknown]; Region: COG5465 224914001483 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 224914001484 dimer interface [polypeptide binding]; other site 224914001485 putative tRNA-binding site [nucleotide binding]; other site 224914001486 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 224914001487 dimer interface [polypeptide binding]; other site 224914001488 phosphorylation site [posttranslational modification] 224914001489 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 224914001490 ATP binding site [chemical binding]; other site 224914001491 Mg2+ binding site [ion binding]; other site 224914001492 G-X-G motif; other site 224914001493 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 224914001494 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 224914001495 active site 224914001496 phosphorylation site [posttranslational modification] 224914001497 intermolecular recognition site; other site 224914001498 dimerization interface [polypeptide binding]; other site 224914001499 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 224914001500 DNA binding site [nucleotide binding] 224914001501 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 224914001502 MarR family; Region: MarR_2; pfam12802 224914001503 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 224914001504 BA14K-like protein; Region: BA14K; pfam07886 224914001505 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 224914001506 DNA-binding site [nucleotide binding]; DNA binding site 224914001507 RNA-binding motif; other site 224914001508 Sporulation related domain; Region: SPOR; pfam05036 224914001509 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 224914001510 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 224914001511 N-acetyl-D-glucosamine binding site [chemical binding]; other site 224914001512 catalytic residue [active] 224914001513 excinuclease ABC subunit B; Provisional; Region: PRK05298 224914001514 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 224914001515 ATP binding site [chemical binding]; other site 224914001516 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 224914001517 nucleotide binding region [chemical binding]; other site 224914001518 ATP-binding site [chemical binding]; other site 224914001519 Ultra-violet resistance protein B; Region: UvrB; pfam12344 224914001520 UvrB/uvrC motif; Region: UVR; pfam02151 224914001521 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 224914001522 Bacterial SH3 domain; Region: SH3_3; pfam08239 224914001523 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 224914001524 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3921 224914001525 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 224914001526 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3169 224914001527 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 224914001528 EamA-like transporter family; Region: EamA; pfam00892 224914001529 EamA-like transporter family; Region: EamA; pfam00892 224914001530 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 224914001531 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 224914001532 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 224914001533 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 224914001534 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 224914001535 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 224914001536 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 224914001537 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 224914001538 putative DNA binding site [nucleotide binding]; other site 224914001539 putative Zn2+ binding site [ion binding]; other site 224914001540 AsnC family; Region: AsnC_trans_reg; pfam01037 224914001541 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 224914001542 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 224914001543 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 224914001544 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 224914001545 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224914001546 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224914001547 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 224914001548 putative effector binding pocket; other site 224914001549 dimerization interface [polypeptide binding]; other site 224914001550 aspartate aminotransferase; Provisional; Region: PRK05764 224914001551 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 224914001552 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914001553 homodimer interface [polypeptide binding]; other site 224914001554 catalytic residue [active] 224914001555 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 224914001556 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 224914001557 putative C-terminal domain interface [polypeptide binding]; other site 224914001558 putative GSH binding site (G-site) [chemical binding]; other site 224914001559 putative dimer interface [polypeptide binding]; other site 224914001560 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 224914001561 N-terminal domain interface [polypeptide binding]; other site 224914001562 dimer interface [polypeptide binding]; other site 224914001563 substrate binding pocket (H-site) [chemical binding]; other site 224914001564 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 224914001565 DNA-binding site [nucleotide binding]; DNA binding site 224914001566 RNA-binding motif; other site 224914001567 NUDIX domain; Region: NUDIX; pfam00293 224914001568 nudix motif; other site 224914001569 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 224914001570 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 224914001571 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 224914001572 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 224914001573 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 224914001574 ATP-grasp domain; Region: ATP-grasp_4; cl17255 224914001575 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 224914001576 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 224914001577 ATP-grasp domain; Region: ATP-grasp_4; cl17255 224914001578 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 224914001579 IMP binding site; other site 224914001580 dimer interface [polypeptide binding]; other site 224914001581 partial ornithine binding site; other site 224914001582 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 224914001583 Predicted membrane protein [Function unknown]; Region: COG5395 224914001584 Predicted metalloprotease [General function prediction only]; Region: COG2321 224914001585 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 224914001586 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 224914001587 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 224914001588 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 224914001589 catalytic site [active] 224914001590 subunit interface [polypeptide binding]; other site 224914001591 Uncharacterized conserved protein [Function unknown]; Region: COG1610 224914001592 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 224914001593 PhoU domain; Region: PhoU; pfam01895 224914001594 PhoU domain; Region: PhoU; pfam01895 224914001595 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 224914001596 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 224914001597 DNA primase; Validated; Region: dnaG; PRK05667 224914001598 CHC2 zinc finger; Region: zf-CHC2; pfam01807 224914001599 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 224914001600 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 224914001601 active site 224914001602 metal binding site [ion binding]; metal-binding site 224914001603 interdomain interaction site; other site 224914001604 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 224914001605 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 224914001606 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 224914001607 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 224914001608 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 224914001609 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 224914001610 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 224914001611 DNA binding residues [nucleotide binding] 224914001612 Uncharacterized conserved protein [Function unknown]; Region: COG5453 224914001613 hypothetical protein; Provisional; Region: PRK05170 224914001614 Uncharacterized conserved protein [Function unknown]; Region: COG2968 224914001615 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 224914001616 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 224914001617 DNA binding site [nucleotide binding] 224914001618 active site 224914001619 Int/Topo IB signature motif; other site 224914001620 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 224914001621 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 224914001622 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 224914001623 active site 224914001624 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2899 224914001625 Isochorismatase family; Region: Isochorismatase; pfam00857 224914001626 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 224914001627 catalytic triad [active] 224914001628 metal binding site [ion binding]; metal-binding site 224914001629 conserved cis-peptide bond; other site 224914001630 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 224914001631 PhnA protein; Region: PhnA; pfam03831 224914001632 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 224914001633 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 224914001634 FAD binding pocket [chemical binding]; other site 224914001635 FAD binding motif [chemical binding]; other site 224914001636 phosphate binding motif [ion binding]; other site 224914001637 beta-alpha-beta structure motif; other site 224914001638 NAD binding pocket [chemical binding]; other site 224914001639 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 224914001640 catalytic loop [active] 224914001641 iron binding site [ion binding]; other site 224914001642 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 224914001643 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 224914001644 [2Fe-2S] cluster binding site [ion binding]; other site 224914001645 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 224914001646 putative alpha subunit interface [polypeptide binding]; other site 224914001647 putative active site [active] 224914001648 putative substrate binding site [chemical binding]; other site 224914001649 Fe binding site [ion binding]; other site 224914001650 Protein of unknown function (DUF1498); Region: DUF1498; cl17840 224914001651 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 224914001652 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 224914001653 PGAP1-like protein; Region: PGAP1; pfam07819 224914001654 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 224914001655 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224914001656 Walker A/P-loop; other site 224914001657 ATP binding site [chemical binding]; other site 224914001658 Q-loop/lid; other site 224914001659 ABC transporter signature motif; other site 224914001660 Walker B; other site 224914001661 D-loop; other site 224914001662 H-loop/switch region; other site 224914001663 ABC transporter; Region: ABC_tran_2; pfam12848 224914001664 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 224914001665 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 224914001666 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 224914001667 S-adenosylmethionine binding site [chemical binding]; other site 224914001668 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 224914001669 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 224914001670 putative substrate translocation pore; other site 224914001671 Uncharacterized conserved protein [Function unknown]; Region: COG5586 224914001672 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 224914001673 dimerization interface [polypeptide binding]; other site 224914001674 putative DNA binding site [nucleotide binding]; other site 224914001675 putative Zn2+ binding site [ion binding]; other site 224914001676 Methyltransferase domain; Region: Methyltransf_23; pfam13489 224914001677 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 224914001678 S-adenosylmethionine binding site [chemical binding]; other site 224914001679 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 224914001680 FAD binding site [chemical binding]; other site 224914001681 Predicted permeases [General function prediction only]; Region: COG0679 224914001682 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 224914001683 murein hydrolase B; Provisional; Region: PRK10760; cl17906 224914001684 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 224914001685 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 224914001686 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 224914001687 active site 224914001688 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 224914001689 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 224914001690 putative metal binding site [ion binding]; other site 224914001691 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 224914001692 HSP70 interaction site [polypeptide binding]; other site 224914001693 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 224914001694 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 224914001695 amidase catalytic site [active] 224914001696 Zn binding residues [ion binding]; other site 224914001697 substrate binding site [chemical binding]; other site 224914001698 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 224914001699 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 224914001700 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 224914001701 N-acetyl-D-glucosamine binding site [chemical binding]; other site 224914001702 catalytic residue [active] 224914001703 manganese transport protein MntH; Reviewed; Region: PRK00701 224914001704 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 224914001705 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 224914001706 MraW methylase family; Region: Methyltransf_5; cl17771 224914001707 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 224914001708 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 224914001709 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 224914001710 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 224914001711 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 224914001712 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 224914001713 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 224914001714 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 224914001715 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 224914001716 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 224914001717 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 224914001718 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 224914001719 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 224914001720 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 224914001721 Mg++ binding site [ion binding]; other site 224914001722 putative catalytic motif [active] 224914001723 putative substrate binding site [chemical binding]; other site 224914001724 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 224914001725 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 224914001726 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 224914001727 cell division protein FtsW; Region: ftsW; TIGR02614 224914001728 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 224914001729 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 224914001730 active site 224914001731 homodimer interface [polypeptide binding]; other site 224914001732 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 224914001733 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 224914001734 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 224914001735 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 224914001736 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 224914001737 FAD binding domain; Region: FAD_binding_4; pfam01565 224914001738 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 224914001739 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 224914001740 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 224914001741 ATP-grasp domain; Region: ATP-grasp_4; cl17255 224914001742 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 224914001743 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 224914001744 Cell division protein FtsQ; Region: FtsQ; pfam03799 224914001745 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 224914001746 Cell division protein FtsA; Region: FtsA; smart00842 224914001747 Cell division protein FtsA; Region: FtsA; pfam14450 224914001748 cell division protein FtsZ; Validated; Region: PRK09330 224914001749 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 224914001750 nucleotide binding site [chemical binding]; other site 224914001751 SulA interaction site; other site 224914001752 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 224914001753 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 224914001754 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 224914001755 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 224914001756 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 224914001757 binding surface 224914001758 TPR motif; other site 224914001759 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 224914001760 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 224914001761 Walker A/P-loop; other site 224914001762 ATP binding site [chemical binding]; other site 224914001763 Q-loop/lid; other site 224914001764 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 224914001765 ABC transporter signature motif; other site 224914001766 Walker B; other site 224914001767 D-loop; other site 224914001768 H-loop/switch region; other site 224914001769 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 224914001770 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 224914001771 nucleotide binding pocket [chemical binding]; other site 224914001772 K-X-D-G motif; other site 224914001773 catalytic site [active] 224914001774 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 224914001775 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 224914001776 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 224914001777 Dimer interface [polypeptide binding]; other site 224914001778 BRCT sequence motif; other site 224914001779 Uncharacterized conserved protein [Function unknown]; Region: COG5587 224914001780 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 224914001781 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 224914001782 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 224914001783 active site 224914001784 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 224914001785 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 224914001786 S-adenosylmethionine binding site [chemical binding]; other site 224914001787 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 224914001788 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 224914001789 Cu(I) binding site [ion binding]; other site 224914001790 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 224914001791 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 224914001792 trimer interface [polypeptide binding]; other site 224914001793 active site 224914001794 substrate binding site [chemical binding]; other site 224914001795 CoA binding site [chemical binding]; other site 224914001796 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 224914001797 CreA protein; Region: CreA; pfam05981 224914001798 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 224914001799 Part of AAA domain; Region: AAA_19; pfam13245 224914001800 Family description; Region: UvrD_C_2; pfam13538 224914001801 serine/threonine protein kinase; Provisional; Region: PRK09188 224914001802 serine/threonine protein kinase; Provisional; Region: PRK12274 224914001803 Uncharacterized conserved protein [Function unknown]; Region: COG4702 224914001804 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 224914001805 FAD binding domain; Region: FAD_binding_4; pfam01565 224914001806 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 224914001807 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 224914001808 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 224914001809 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 224914001810 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 224914001811 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 224914001812 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 224914001813 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 224914001814 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 224914001815 putative substrate translocation pore; other site 224914001816 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 224914001817 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 224914001818 thymidylate synthase; Reviewed; Region: thyA; PRK01827 224914001819 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 224914001820 dimerization interface [polypeptide binding]; other site 224914001821 active site 224914001822 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 224914001823 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 224914001824 folate binding site [chemical binding]; other site 224914001825 NADP+ binding site [chemical binding]; other site 224914001826 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 224914001827 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 224914001828 HflK protein; Region: hflK; TIGR01933 224914001829 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 224914001830 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 224914001831 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 224914001832 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 224914001833 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 224914001834 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 224914001835 protein binding site [polypeptide binding]; other site 224914001836 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 224914001837 protein binding site [polypeptide binding]; other site 224914001838 Predicted flavoproteins [General function prediction only]; Region: COG2081 224914001839 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 224914001840 Histone 2A; H2A is a subunit of the nucleosome. The nucleosome is an octamer containing two H2A, H2B, H3, and H4 subunits. The H2A subunit performs essential roles in maintaining structural integrity of the nucleosome, chromatin condensation, and binding...; Region: H2A; cl00074 224914001841 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 224914001842 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 224914001843 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 224914001844 motif II; other site 224914001845 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 224914001846 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 224914001847 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 224914001848 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 224914001849 PYR/PP interface [polypeptide binding]; other site 224914001850 dimer interface [polypeptide binding]; other site 224914001851 TPP binding site [chemical binding]; other site 224914001852 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 224914001853 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 224914001854 TPP-binding site [chemical binding]; other site 224914001855 dimer interface [polypeptide binding]; other site 224914001856 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 224914001857 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 224914001858 putative valine binding site [chemical binding]; other site 224914001859 dimer interface [polypeptide binding]; other site 224914001860 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 224914001861 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 224914001862 AAA domain; Region: AAA_30; pfam13604 224914001863 Family description; Region: UvrD_C_2; pfam13538 224914001864 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 224914001865 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 224914001866 active site 224914001867 hydrophilic channel; other site 224914001868 dimerization interface [polypeptide binding]; other site 224914001869 catalytic residues [active] 224914001870 active site lid [active] 224914001871 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 224914001872 potassium uptake protein; Region: kup; TIGR00794 224914001873 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 224914001874 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 224914001875 ketol-acid reductoisomerase; Provisional; Region: PRK05479 224914001876 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 224914001877 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 224914001878 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 224914001879 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 224914001880 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914001881 homodimer interface [polypeptide binding]; other site 224914001882 catalytic residue [active] 224914001883 BA14K-like protein; Region: BA14K; pfam07886 224914001884 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 224914001885 putative catalytic site [active] 224914001886 putative metal binding site [ion binding]; other site 224914001887 putative phosphate binding site [ion binding]; other site 224914001888 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 224914001889 putative metal binding site [ion binding]; other site 224914001890 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 224914001891 nudix motif; other site 224914001892 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 224914001893 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 224914001894 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 224914001895 camphor resistance protein CrcB; Provisional; Region: ccrB; PRK01636 224914001896 Uncharacterized conserved protein [Function unknown]; Region: COG3439 224914001897 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 224914001898 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224914001899 ABC transporter signature motif; other site 224914001900 Walker B; other site 224914001901 D-loop; other site 224914001902 H-loop/switch region; other site 224914001903 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 224914001904 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224914001905 Walker A/P-loop; other site 224914001906 ATP binding site [chemical binding]; other site 224914001907 Q-loop/lid; other site 224914001908 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 224914001909 cobalt transport protein CbiM; Validated; Region: PRK06265 224914001910 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 224914001911 ABC-type Co2+ transport system, permease component [Inorganic ion transport and metabolism]; Region: CbiM; COG0310 224914001912 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 224914001913 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 224914001914 Urea transporter [Amino acid transport and metabolism]; Region: Utp; COG4413 224914001915 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 224914001916 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 224914001917 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 224914001918 UreF; Region: UreF; pfam01730 224914001919 urease accessory protein UreE; Provisional; Region: ureE; PRK14711 224914001920 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 224914001921 dimer interface [polypeptide binding]; other site 224914001922 catalytic residues [active] 224914001923 urease subunit alpha; Reviewed; Region: ureC; PRK13309 224914001924 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 224914001925 subunit interactions [polypeptide binding]; other site 224914001926 active site 224914001927 flap region; other site 224914001928 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 224914001929 alpha-beta subunit interface [polypeptide binding]; other site 224914001930 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 224914001931 alpha-gamma subunit interface [polypeptide binding]; other site 224914001932 beta-gamma subunit interface [polypeptide binding]; other site 224914001933 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 224914001934 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 224914001935 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 224914001936 HlyD family secretion protein; Region: HlyD_3; pfam13437 224914001937 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 224914001938 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224914001939 ABC transporter signature motif; other site 224914001940 Walker B; other site 224914001941 D-loop; other site 224914001942 H-loop/switch region; other site 224914001943 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 224914001944 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 224914001945 Walker A/P-loop; other site 224914001946 ATP binding site [chemical binding]; other site 224914001947 Q-loop/lid; other site 224914001948 ABC transporter signature motif; other site 224914001949 Walker B; other site 224914001950 D-loop; other site 224914001951 H-loop/switch region; other site 224914001952 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 224914001953 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 224914001954 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 224914001955 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 224914001956 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 224914001957 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 224914001958 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 224914001959 N-terminal plug; other site 224914001960 ligand-binding site [chemical binding]; other site 224914001961 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 224914001962 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 224914001963 intersubunit interface [polypeptide binding]; other site 224914001964 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 224914001965 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 224914001966 ABC-ATPase subunit interface; other site 224914001967 dimer interface [polypeptide binding]; other site 224914001968 putative PBP binding regions; other site 224914001969 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 224914001970 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 224914001971 Walker A/P-loop; other site 224914001972 ATP binding site [chemical binding]; other site 224914001973 Q-loop/lid; other site 224914001974 ABC transporter signature motif; other site 224914001975 Walker B; other site 224914001976 D-loop; other site 224914001977 H-loop/switch region; other site 224914001978 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 224914001979 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 224914001980 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 224914001981 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 224914001982 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 224914001983 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 224914001984 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 224914001985 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 224914001986 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 224914001987 TM-ABC transporter signature motif; other site 224914001988 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 224914001989 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 224914001990 Walker A/P-loop; other site 224914001991 ATP binding site [chemical binding]; other site 224914001992 Q-loop/lid; other site 224914001993 ABC transporter signature motif; other site 224914001994 Walker B; other site 224914001995 D-loop; other site 224914001996 H-loop/switch region; other site 224914001997 short chain dehydrogenase; Provisional; Region: PRK06198 224914001998 classical (c) SDRs; Region: SDR_c; cd05233 224914001999 NAD(P) binding site [chemical binding]; other site 224914002000 active site 224914002001 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 224914002002 EF-hand domain pair; Region: EF_hand_5; pfam13499 224914002003 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 224914002004 Ca2+ binding site [ion binding]; other site 224914002005 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 224914002006 Ca2+ binding site [ion binding]; other site 224914002007 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 224914002008 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 224914002009 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 224914002010 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 224914002011 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 224914002012 Transporter associated domain; Region: CorC_HlyC; smart01091 224914002013 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CysP; COG4150 224914002014 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 224914002015 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 224914002016 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914002017 dimer interface [polypeptide binding]; other site 224914002018 conserved gate region; other site 224914002019 putative PBP binding loops; other site 224914002020 ABC-ATPase subunit interface; other site 224914002021 sulfate transport protein; Provisional; Region: cysT; CHL00187 224914002022 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914002023 dimer interface [polypeptide binding]; other site 224914002024 conserved gate region; other site 224914002025 putative PBP binding loops; other site 224914002026 ABC-ATPase subunit interface; other site 224914002027 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 224914002028 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 224914002029 Predicted integral membrane protein [Function unknown]; Region: COG0392 224914002030 putative cation:proton antiport protein; Provisional; Region: PRK10669 224914002031 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 224914002032 TrkA-N domain; Region: TrkA_N; pfam02254 224914002033 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 224914002034 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 224914002035 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 224914002036 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 224914002037 Protein export membrane protein; Region: SecD_SecF; pfam02355 224914002038 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 224914002039 Mechanosensitive ion channel; Region: MS_channel; pfam00924 224914002040 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 224914002041 hydroxyglutarate oxidase; Provisional; Region: PRK11728 224914002042 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 224914002043 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 224914002044 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 224914002045 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 224914002046 conserved cys residue [active] 224914002047 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224914002048 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224914002049 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224914002050 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224914002051 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 224914002052 dimerization interface [polypeptide binding]; other site 224914002053 Predicted small secreted protein [Function unknown]; Region: COG5510 224914002054 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 224914002055 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 224914002056 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 224914002057 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 224914002058 substrate binding pocket [chemical binding]; other site 224914002059 FAD binding site [chemical binding]; other site 224914002060 catalytic base [active] 224914002061 cobyric acid synthase; Provisional; Region: PRK00784 224914002062 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 224914002063 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 224914002064 catalytic triad [active] 224914002065 cobalt transporter subunit CbtB (proposed); Region: CbtB; TIGR02459 224914002066 Predicted integral membrane protein [Function unknown]; Region: COG5446 224914002067 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 224914002068 homotrimer interface [polypeptide binding]; other site 224914002069 Walker A motif; other site 224914002070 GTP binding site [chemical binding]; other site 224914002071 Walker B motif; other site 224914002072 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 224914002073 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 224914002074 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 224914002075 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 224914002076 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 224914002077 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 224914002078 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 224914002079 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 224914002080 homodimer interface [polypeptide binding]; other site 224914002081 Walker A motif; other site 224914002082 ATP binding site [chemical binding]; other site 224914002083 hydroxycobalamin binding site [chemical binding]; other site 224914002084 Walker B motif; other site 224914002085 Predicted membrane protein [Function unknown]; Region: COG2510 224914002086 hypothetical protein; Provisional; Region: PRK10621 224914002087 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 224914002088 tellurium resistance terB-like protein; Region: terB_like; cd07177 224914002089 metal binding site [ion binding]; metal-binding site 224914002090 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 224914002091 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 224914002092 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 224914002093 active site 224914002094 SAM binding site [chemical binding]; other site 224914002095 homodimer interface [polypeptide binding]; other site 224914002096 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 224914002097 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 224914002098 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 224914002099 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 224914002100 active site 224914002101 SAM binding site [chemical binding]; other site 224914002102 homodimer interface [polypeptide binding]; other site 224914002103 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 224914002104 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 224914002105 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 224914002106 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 224914002107 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 224914002108 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914002109 homodimer interface [polypeptide binding]; other site 224914002110 catalytic residue [active] 224914002111 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 224914002112 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 224914002113 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 224914002114 ligand binding site [chemical binding]; other site 224914002115 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 224914002116 Flavin Reductases; Region: FlaRed; cl00801 224914002117 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 224914002118 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 224914002119 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 224914002120 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 224914002121 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 224914002122 active site 224914002123 SAM binding site [chemical binding]; other site 224914002124 homodimer interface [polypeptide binding]; other site 224914002125 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 224914002126 active site 224914002127 SAM binding site [chemical binding]; other site 224914002128 homodimer interface [polypeptide binding]; other site 224914002129 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 224914002130 Precorrin-8X methylmutase; Region: CbiC; pfam02570 224914002131 precorrin-3B synthase; Region: CobG; TIGR02435 224914002132 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 224914002133 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 224914002134 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 224914002135 active site 224914002136 SAM binding site [chemical binding]; other site 224914002137 putative homodimer interface [polypeptide binding]; other site 224914002138 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 224914002139 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 224914002140 S-adenosylmethionine binding site [chemical binding]; other site 224914002141 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 224914002142 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 224914002143 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 224914002144 MPN+ (JAMM) motif; other site 224914002145 Zinc-binding site [ion binding]; other site 224914002146 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 224914002147 active site 224914002148 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 224914002149 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3553 224914002150 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 224914002151 Peptidase M15; Region: Peptidase_M15_3; cl01194 224914002152 aminotransferase; Validated; Region: PRK09148 224914002153 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 224914002154 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914002155 homodimer interface [polypeptide binding]; other site 224914002156 catalytic residue [active] 224914002157 homoserine dehydrogenase; Provisional; Region: PRK06349 224914002158 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 224914002159 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 224914002160 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 224914002161 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 224914002162 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 224914002163 putative active site [active] 224914002164 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 224914002165 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 224914002166 ATP-grasp domain; Region: ATP-grasp_4; cl17255 224914002167 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 224914002168 DHH family; Region: DHH; pfam01368 224914002169 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 224914002170 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 224914002171 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 224914002172 dimer interface [polypeptide binding]; other site 224914002173 active site 224914002174 metal binding site [ion binding]; metal-binding site 224914002175 glutathione binding site [chemical binding]; other site 224914002176 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 224914002177 DNA-binding site [nucleotide binding]; DNA binding site 224914002178 RNA-binding motif; other site 224914002179 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 224914002180 DNA-binding site [nucleotide binding]; DNA binding site 224914002181 RNA-binding motif; other site 224914002182 Uncharacterized conserved protein [Function unknown]; Region: COG1430 224914002183 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 224914002184 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 224914002185 serine acetyltransferase; Provisional; Region: cysE; PRK11132 224914002186 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 224914002187 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 224914002188 trimer interface [polypeptide binding]; other site 224914002189 active site 224914002190 substrate binding site [chemical binding]; other site 224914002191 CoA binding site [chemical binding]; other site 224914002192 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 224914002193 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 224914002194 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 224914002195 trimer interface [polypeptide binding]; other site 224914002196 putative metal binding site [ion binding]; other site 224914002197 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 224914002198 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 224914002199 PAS domain; Region: PAS_5; pfam07310 224914002200 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 224914002201 FOG: CBS domain [General function prediction only]; Region: COG0517 224914002202 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 224914002203 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 224914002204 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 224914002205 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 224914002206 elongation factor Tu; Reviewed; Region: PRK00049 224914002207 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 224914002208 G1 box; other site 224914002209 GEF interaction site [polypeptide binding]; other site 224914002210 GTP/Mg2+ binding site [chemical binding]; other site 224914002211 Switch I region; other site 224914002212 G2 box; other site 224914002213 G3 box; other site 224914002214 Switch II region; other site 224914002215 G4 box; other site 224914002216 G5 box; other site 224914002217 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 224914002218 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 224914002219 Antibiotic Binding Site [chemical binding]; other site 224914002220 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 224914002221 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 224914002222 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 224914002223 putative homodimer interface [polypeptide binding]; other site 224914002224 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 224914002225 heterodimer interface [polypeptide binding]; other site 224914002226 homodimer interface [polypeptide binding]; other site 224914002227 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 224914002228 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 224914002229 23S rRNA interface [nucleotide binding]; other site 224914002230 L7/L12 interface [polypeptide binding]; other site 224914002231 putative thiostrepton binding site; other site 224914002232 L25 interface [polypeptide binding]; other site 224914002233 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 224914002234 mRNA/rRNA interface [nucleotide binding]; other site 224914002235 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 224914002236 23S rRNA interface [nucleotide binding]; other site 224914002237 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 224914002238 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 224914002239 L11 interface [polypeptide binding]; other site 224914002240 putative EF-Tu interaction site [polypeptide binding]; other site 224914002241 putative EF-G interaction site [polypeptide binding]; other site 224914002242 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 224914002243 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 224914002244 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 224914002245 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 224914002246 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 224914002247 RPB11 interaction site [polypeptide binding]; other site 224914002248 RPB12 interaction site [polypeptide binding]; other site 224914002249 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 224914002250 RPB1 interaction site [polypeptide binding]; other site 224914002251 RPB11 interaction site [polypeptide binding]; other site 224914002252 RPB10 interaction site [polypeptide binding]; other site 224914002253 RPB3 interaction site [polypeptide binding]; other site 224914002254 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 224914002255 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 224914002256 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 224914002257 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 224914002258 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 224914002259 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 224914002260 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 224914002261 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 224914002262 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 224914002263 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 224914002264 DNA binding site [nucleotide binding] 224914002265 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 224914002266 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 224914002267 S17 interaction site [polypeptide binding]; other site 224914002268 S8 interaction site; other site 224914002269 16S rRNA interaction site [nucleotide binding]; other site 224914002270 streptomycin interaction site [chemical binding]; other site 224914002271 23S rRNA interaction site [nucleotide binding]; other site 224914002272 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 224914002273 30S ribosomal protein S7; Validated; Region: PRK05302 224914002274 elongation factor G; Reviewed; Region: PRK00007 224914002275 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 224914002276 G1 box; other site 224914002277 putative GEF interaction site [polypeptide binding]; other site 224914002278 GTP/Mg2+ binding site [chemical binding]; other site 224914002279 Switch I region; other site 224914002280 G2 box; other site 224914002281 G3 box; other site 224914002282 Switch II region; other site 224914002283 G4 box; other site 224914002284 G5 box; other site 224914002285 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 224914002286 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 224914002287 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 224914002288 elongation factor Tu; Reviewed; Region: PRK00049 224914002289 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 224914002290 G1 box; other site 224914002291 GEF interaction site [polypeptide binding]; other site 224914002292 GTP/Mg2+ binding site [chemical binding]; other site 224914002293 Switch I region; other site 224914002294 G2 box; other site 224914002295 G3 box; other site 224914002296 Switch II region; other site 224914002297 G4 box; other site 224914002298 G5 box; other site 224914002299 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 224914002300 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 224914002301 Antibiotic Binding Site [chemical binding]; other site 224914002302 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 224914002303 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 224914002304 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 224914002305 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 224914002306 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 224914002307 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 224914002308 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 224914002309 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 224914002310 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 224914002311 putative translocon binding site; other site 224914002312 protein-rRNA interface [nucleotide binding]; other site 224914002313 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 224914002314 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 224914002315 G-X-X-G motif; other site 224914002316 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 224914002317 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 224914002318 23S rRNA interface [nucleotide binding]; other site 224914002319 5S rRNA interface [nucleotide binding]; other site 224914002320 putative antibiotic binding site [chemical binding]; other site 224914002321 L25 interface [polypeptide binding]; other site 224914002322 L27 interface [polypeptide binding]; other site 224914002323 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 224914002324 23S rRNA interface [nucleotide binding]; other site 224914002325 putative translocon interaction site; other site 224914002326 signal recognition particle (SRP54) interaction site; other site 224914002327 L23 interface [polypeptide binding]; other site 224914002328 trigger factor interaction site; other site 224914002329 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 224914002330 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 224914002331 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 224914002332 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 224914002333 RNA binding site [nucleotide binding]; other site 224914002334 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 224914002335 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 224914002336 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 224914002337 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 224914002338 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 224914002339 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 224914002340 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 224914002341 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 224914002342 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 224914002343 5S rRNA interface [nucleotide binding]; other site 224914002344 23S rRNA interface [nucleotide binding]; other site 224914002345 L5 interface [polypeptide binding]; other site 224914002346 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 224914002347 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 224914002348 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 224914002349 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 224914002350 23S rRNA binding site [nucleotide binding]; other site 224914002351 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 224914002352 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 224914002353 SecY translocase; Region: SecY; pfam00344 224914002354 adenylate kinase; Reviewed; Region: adk; PRK00279 224914002355 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 224914002356 AMP-binding site [chemical binding]; other site 224914002357 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 224914002358 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 224914002359 30S ribosomal protein S13; Region: bact_S13; TIGR03631 224914002360 30S ribosomal protein S11; Validated; Region: PRK05309 224914002361 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 224914002362 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 224914002363 alphaNTD homodimer interface [polypeptide binding]; other site 224914002364 alphaNTD - beta interaction site [polypeptide binding]; other site 224914002365 alphaNTD - beta' interaction site [polypeptide binding]; other site 224914002366 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 224914002367 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 224914002368 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 224914002369 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 224914002370 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 224914002371 protein binding site [polypeptide binding]; other site 224914002372 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 224914002373 protein binding site [polypeptide binding]; other site 224914002374 recombination factor protein RarA; Reviewed; Region: PRK13342 224914002375 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 224914002376 Walker A motif; other site 224914002377 ATP binding site [chemical binding]; other site 224914002378 Walker B motif; other site 224914002379 arginine finger; other site 224914002380 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 224914002381 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 224914002382 N-acetyl-D-glucosamine binding site [chemical binding]; other site 224914002383 catalytic residue [active] 224914002384 putative outer membrane lipoprotein; Provisional; Region: PRK10510 224914002385 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 224914002386 ligand binding site [chemical binding]; other site 224914002387 recombinase A; Provisional; Region: recA; PRK09354 224914002388 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 224914002389 hexamer interface [polypeptide binding]; other site 224914002390 Walker A motif; other site 224914002391 ATP binding site [chemical binding]; other site 224914002392 Walker B motif; other site 224914002393 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 224914002394 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 224914002395 motif 1; other site 224914002396 active site 224914002397 motif 2; other site 224914002398 motif 3; other site 224914002399 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 224914002400 alkaline phosphatase; Provisional; Region: PRK10518 224914002401 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 224914002402 dimer interface [polypeptide binding]; other site 224914002403 active site 224914002404 isocitrate dehydrogenase; Validated; Region: PRK08299 224914002405 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 224914002406 intracellular protease, PfpI family; Region: PfpI; TIGR01382 224914002407 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 224914002408 conserved cys residue [active] 224914002409 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 224914002410 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 224914002411 glutamate racemase; Provisional; Region: PRK00865 224914002412 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 224914002413 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 224914002414 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 224914002415 DctM-like transporters; Region: DctM; pfam06808 224914002416 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 224914002417 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 224914002418 active site 224914002419 substrate binding site [chemical binding]; other site 224914002420 coenzyme B12 binding site [chemical binding]; other site 224914002421 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 224914002422 B12 binding site [chemical binding]; other site 224914002423 cobalt ligand [ion binding]; other site 224914002424 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 224914002425 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 224914002426 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 224914002427 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 224914002428 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 224914002429 carboxyltransferase (CT) interaction site; other site 224914002430 biotinylation site [posttranslational modification]; other site 224914002431 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 224914002432 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 224914002433 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 224914002434 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 224914002435 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 224914002436 non-specific DNA binding site [nucleotide binding]; other site 224914002437 salt bridge; other site 224914002438 sequence-specific DNA binding site [nucleotide binding]; other site 224914002439 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 224914002440 Domain of unknown function (DUF955); Region: DUF955; pfam06114 224914002441 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 224914002442 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3803 224914002443 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 224914002444 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 224914002445 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 224914002446 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 224914002447 DNA binding residues [nucleotide binding] 224914002448 putative dimer interface [polypeptide binding]; other site 224914002449 Predicted membrane protein [Function unknown]; Region: COG3503 224914002450 Uncharacterized conserved protein [Function unknown]; Region: COG1434 224914002451 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 224914002452 putative active site [active] 224914002453 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 224914002454 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 224914002455 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 224914002456 Uncharacterized conserved protein [Function unknown]; Region: COG5458 224914002457 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 224914002458 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 224914002459 Sporulation related domain; Region: SPOR; pfam05036 224914002460 Uncharacterized conserved protein [Function unknown]; Region: COG2127 224914002461 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 224914002462 Clp amino terminal domain; Region: Clp_N; pfam02861 224914002463 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 224914002464 Walker A motif; other site 224914002465 ATP binding site [chemical binding]; other site 224914002466 Walker B motif; other site 224914002467 arginine finger; other site 224914002468 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 224914002469 Walker A motif; other site 224914002470 ATP binding site [chemical binding]; other site 224914002471 Walker B motif; other site 224914002472 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 224914002473 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 224914002474 HIT family signature motif; other site 224914002475 catalytic residue [active] 224914002476 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3146 224914002477 Protein of unknown function, DUF482; Region: DUF482; pfam04339 224914002478 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_3; cd08585 224914002479 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 224914002480 putative active site [active] 224914002481 catalytic site [active] 224914002482 putative metal binding site [ion binding]; other site 224914002483 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 224914002484 homotrimer interaction site [polypeptide binding]; other site 224914002485 putative active site [active] 224914002486 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 224914002487 Uncharacterized protein conserved in bacteria with a cystatin-like fold [Function unknown]; Region: COG4875 224914002488 SnoaL-like domain; Region: SnoaL_3; pfam13474 224914002489 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 224914002490 rRNA interaction site [nucleotide binding]; other site 224914002491 S8 interaction site; other site 224914002492 putative laminin-1 binding site; other site 224914002493 elongation factor Ts; Provisional; Region: tsf; PRK09377 224914002494 UBA/TS-N domain; Region: UBA; pfam00627 224914002495 Elongation factor TS; Region: EF_TS; pfam00889 224914002496 Elongation factor TS; Region: EF_TS; pfam00889 224914002497 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 224914002498 putative nucleotide binding site [chemical binding]; other site 224914002499 uridine monophosphate binding site [chemical binding]; other site 224914002500 homohexameric interface [polypeptide binding]; other site 224914002501 ribosome recycling factor; Reviewed; Region: frr; PRK00083 224914002502 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 224914002503 hinge region; other site 224914002504 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14834 224914002505 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 224914002506 catalytic residue [active] 224914002507 putative FPP diphosphate binding site; other site 224914002508 putative FPP binding hydrophobic cleft; other site 224914002509 dimer interface [polypeptide binding]; other site 224914002510 putative IPP diphosphate binding site; other site 224914002511 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 224914002512 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 224914002513 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 224914002514 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 224914002515 active site 224914002516 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 224914002517 protein binding site [polypeptide binding]; other site 224914002518 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 224914002519 putative substrate binding region [chemical binding]; other site 224914002520 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 224914002521 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 224914002522 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 224914002523 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 224914002524 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 224914002525 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 224914002526 Surface antigen; Region: Bac_surface_Ag; pfam01103 224914002527 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 224914002528 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 224914002529 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 224914002530 trimer interface [polypeptide binding]; other site 224914002531 active site 224914002532 UDP-GlcNAc binding site [chemical binding]; other site 224914002533 lipid binding site [chemical binding]; lipid-binding site 224914002534 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 224914002535 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 224914002536 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 224914002537 active site 224914002538 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3494 224914002539 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 224914002540 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 224914002541 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 224914002542 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 224914002543 dimer interface [polypeptide binding]; other site 224914002544 active site 224914002545 citrylCoA binding site [chemical binding]; other site 224914002546 NADH binding [chemical binding]; other site 224914002547 cationic pore residues; other site 224914002548 oxalacetate/citrate binding site [chemical binding]; other site 224914002549 coenzyme A binding site [chemical binding]; other site 224914002550 catalytic triad [active] 224914002551 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 224914002552 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 224914002553 active site 224914002554 HIGH motif; other site 224914002555 nucleotide binding site [chemical binding]; other site 224914002556 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 224914002557 active site 224914002558 KMSKS motif; other site 224914002559 Competence protein; Region: Competence; pfam03772 224914002560 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 224914002561 LexA repressor; Validated; Region: PRK00215 224914002562 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 224914002563 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 224914002564 Catalytic site [active] 224914002565 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 224914002566 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 224914002567 dimer interface [polypeptide binding]; other site 224914002568 putative functional site; other site 224914002569 putative MPT binding site; other site 224914002570 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 224914002571 trimer interface [polypeptide binding]; other site 224914002572 dimer interface [polypeptide binding]; other site 224914002573 putative active site [active] 224914002574 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 224914002575 active site 224914002576 ribulose/triose binding site [chemical binding]; other site 224914002577 phosphate binding site [ion binding]; other site 224914002578 substrate (anthranilate) binding pocket [chemical binding]; other site 224914002579 product (indole) binding pocket [chemical binding]; other site 224914002580 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 224914002581 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 224914002582 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 224914002583 SurA N-terminal domain; Region: SurA_N_3; cl07813 224914002584 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 224914002585 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 224914002586 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 224914002587 triosephosphate isomerase; Provisional; Region: PRK14565 224914002588 substrate binding site [chemical binding]; other site 224914002589 dimer interface [polypeptide binding]; other site 224914002590 catalytic triad [active] 224914002591 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 224914002592 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 224914002593 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 224914002594 CTP synthetase; Validated; Region: pyrG; PRK05380 224914002595 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 224914002596 Catalytic site [active] 224914002597 active site 224914002598 UTP binding site [chemical binding]; other site 224914002599 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 224914002600 active site 224914002601 putative oxyanion hole; other site 224914002602 catalytic triad [active] 224914002603 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 224914002604 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 224914002605 enolase; Provisional; Region: eno; PRK00077 224914002606 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 224914002607 dimer interface [polypeptide binding]; other site 224914002608 metal binding site [ion binding]; metal-binding site 224914002609 substrate binding pocket [chemical binding]; other site 224914002610 Methyltransferase domain; Region: Methyltransf_23; pfam13489 224914002611 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 224914002612 S-adenosylmethionine binding site [chemical binding]; other site 224914002613 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 224914002614 Septum formation initiator; Region: DivIC; pfam04977 224914002615 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 224914002616 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 224914002617 tetramer interface [polypeptide binding]; other site 224914002618 TPP-binding site [chemical binding]; other site 224914002619 heterodimer interface [polypeptide binding]; other site 224914002620 phosphorylation loop region [posttranslational modification] 224914002621 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 224914002622 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 224914002623 E3 interaction surface; other site 224914002624 lipoyl attachment site [posttranslational modification]; other site 224914002625 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 224914002626 alpha subunit interface [polypeptide binding]; other site 224914002627 TPP binding site [chemical binding]; other site 224914002628 heterodimer interface [polypeptide binding]; other site 224914002629 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 224914002630 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 224914002631 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 224914002632 E3 interaction surface; other site 224914002633 lipoyl attachment site [posttranslational modification]; other site 224914002634 e3 binding domain; Region: E3_binding; pfam02817 224914002635 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 224914002636 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 224914002637 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 224914002638 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 224914002639 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 224914002640 lipoyl synthase; Provisional; Region: PRK05481 224914002641 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 224914002642 FeS/SAM binding site; other site 224914002643 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 224914002644 putative coenzyme Q binding site [chemical binding]; other site 224914002645 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 224914002646 classical (c) SDRs; Region: SDR_c; cd05233 224914002647 NAD(P) binding site [chemical binding]; other site 224914002648 active site 224914002649 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 224914002650 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 224914002651 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 224914002652 substrate binding site; other site 224914002653 dimer interface; other site 224914002654 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 224914002655 homotrimer interaction site [polypeptide binding]; other site 224914002656 zinc binding site [ion binding]; other site 224914002657 CDP-binding sites; other site 224914002658 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 224914002659 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 224914002660 FMN binding site [chemical binding]; other site 224914002661 active site 224914002662 catalytic residues [active] 224914002663 substrate binding site [chemical binding]; other site 224914002664 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 224914002665 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 224914002666 dimer interface [polypeptide binding]; other site 224914002667 phosphorylation site [posttranslational modification] 224914002668 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 224914002669 ATP binding site [chemical binding]; other site 224914002670 Mg2+ binding site [ion binding]; other site 224914002671 G-X-G motif; other site 224914002672 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 224914002673 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 224914002674 active site 224914002675 phosphorylation site [posttranslational modification] 224914002676 intermolecular recognition site; other site 224914002677 dimerization interface [polypeptide binding]; other site 224914002678 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 224914002679 Walker A motif; other site 224914002680 ATP binding site [chemical binding]; other site 224914002681 Walker B motif; other site 224914002682 arginine finger; other site 224914002683 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 224914002684 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 224914002685 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 224914002686 dimerization interface [polypeptide binding]; other site 224914002687 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 224914002688 dimer interface [polypeptide binding]; other site 224914002689 phosphorylation site [posttranslational modification] 224914002690 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 224914002691 ATP binding site [chemical binding]; other site 224914002692 Mg2+ binding site [ion binding]; other site 224914002693 G-X-G motif; other site 224914002694 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 224914002695 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 224914002696 active site 224914002697 phosphorylation site [posttranslational modification] 224914002698 intermolecular recognition site; other site 224914002699 dimerization interface [polypeptide binding]; other site 224914002700 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 224914002701 Walker A motif; other site 224914002702 ATP binding site [chemical binding]; other site 224914002703 Walker B motif; other site 224914002704 arginine finger; other site 224914002705 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 224914002706 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 224914002707 TrkA-N domain; Region: TrkA_N; pfam02254 224914002708 TrkA-C domain; Region: TrkA_C; pfam02080 224914002709 TrkA-N domain; Region: TrkA_N; pfam02254 224914002710 TrkA-C domain; Region: TrkA_C; pfam02080 224914002711 Capsular polysaccharide synthesis protein; Region: Caps_synth; pfam05704 224914002712 bacterial Hfq-like; Region: Hfq; cd01716 224914002713 hexamer interface [polypeptide binding]; other site 224914002714 Sm1 motif; other site 224914002715 RNA binding site [nucleotide binding]; other site 224914002716 Sm2 motif; other site 224914002717 GTPases [General function prediction only]; Region: HflX; COG2262 224914002718 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 224914002719 HflX GTPase family; Region: HflX; cd01878 224914002720 G1 box; other site 224914002721 GTP/Mg2+ binding site [chemical binding]; other site 224914002722 Switch I region; other site 224914002723 G2 box; other site 224914002724 G3 box; other site 224914002725 Switch II region; other site 224914002726 G4 box; other site 224914002727 G5 box; other site 224914002728 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 224914002729 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 224914002730 oligomer interface [polypeptide binding]; other site 224914002731 active site residues [active] 224914002732 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 224914002733 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 224914002734 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 224914002735 Walker A motif; other site 224914002736 ATP binding site [chemical binding]; other site 224914002737 Walker B motif; other site 224914002738 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 224914002739 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 224914002740 Found in ATP-dependent protease La (LON); Region: LON; smart00464 224914002741 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 224914002742 Walker A motif; other site 224914002743 ATP binding site [chemical binding]; other site 224914002744 Walker B motif; other site 224914002745 arginine finger; other site 224914002746 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 224914002747 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 224914002748 IHF dimer interface [polypeptide binding]; other site 224914002749 IHF - DNA interface [nucleotide binding]; other site 224914002750 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 224914002751 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 224914002752 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 224914002753 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 224914002754 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 224914002755 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 224914002756 dimer interface [polypeptide binding]; other site 224914002757 ssDNA binding site [nucleotide binding]; other site 224914002758 tetramer (dimer of dimers) interface [polypeptide binding]; other site 224914002759 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 224914002760 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224914002761 DNA-binding site [nucleotide binding]; DNA binding site 224914002762 UTRA domain; Region: UTRA; pfam07702 224914002763 Uncharacterized component of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3709 224914002764 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 224914002765 DNA gyrase subunit A; Validated; Region: PRK05560 224914002766 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 224914002767 CAP-like domain; other site 224914002768 active site 224914002769 primary dimer interface [polypeptide binding]; other site 224914002770 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 224914002771 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 224914002772 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 224914002773 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 224914002774 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 224914002775 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 224914002776 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 224914002777 active site 224914002778 (T/H)XGH motif; other site 224914002779 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 224914002780 active site 224914002781 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 224914002782 active site 224914002783 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 224914002784 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 224914002785 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 224914002786 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 224914002787 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 224914002788 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 224914002789 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 224914002790 HlyD family secretion protein; Region: HlyD_3; pfam13437 224914002791 multidrug efflux protein; Reviewed; Region: PRK09579 224914002792 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 224914002793 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 224914002794 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 224914002795 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 224914002796 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224914002797 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224914002798 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 224914002799 dimerization interface [polypeptide binding]; other site 224914002800 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 224914002801 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 224914002802 FAD binding site [chemical binding]; other site 224914002803 substrate binding pocket [chemical binding]; other site 224914002804 catalytic base [active] 224914002805 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 224914002806 CoA-transferase family III; Region: CoA_transf_3; pfam02515 224914002807 Prophage antirepressor [Transcription]; Region: COG3617 224914002808 BRO family, N-terminal domain; Region: Bro-N; smart01040 224914002809 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 224914002810 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 224914002811 catalytic residues [active] 224914002812 catalytic nucleophile [active] 224914002813 Presynaptic Site I dimer interface [polypeptide binding]; other site 224914002814 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 224914002815 Synaptic Flat tetramer interface [polypeptide binding]; other site 224914002816 Synaptic Site I dimer interface [polypeptide binding]; other site 224914002817 DNA binding site [nucleotide binding] 224914002818 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 224914002819 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 224914002820 DNA-binding interface [nucleotide binding]; DNA binding site 224914002821 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 224914002822 hypothetical protein; Provisional; Region: PRK10279 224914002823 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 224914002824 nucleophile elbow; other site 224914002825 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 224914002826 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 224914002827 homodecamer interface [polypeptide binding]; other site 224914002828 GTP cyclohydrolase I; Provisional; Region: PLN03044 224914002829 active site 224914002830 putative catalytic site residues [active] 224914002831 zinc binding site [ion binding]; other site 224914002832 GTP-CH-I/GFRP interaction surface; other site 224914002833 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 224914002834 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 224914002835 trimerization site [polypeptide binding]; other site 224914002836 active site 224914002837 hypothetical protein; Validated; Region: PRK00041 224914002838 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 224914002839 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 224914002840 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 224914002841 Sporulation related domain; Region: SPOR; pfam05036 224914002842 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 224914002843 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 224914002844 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 224914002845 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 224914002846 active site 224914002847 dimer interface [polypeptide binding]; other site 224914002848 motif 1; other site 224914002849 motif 2; other site 224914002850 motif 3; other site 224914002851 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 224914002852 anticodon binding site; other site 224914002853 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 224914002854 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 224914002855 dimer interface [polypeptide binding]; other site 224914002856 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 224914002857 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 224914002858 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 224914002859 homodimer interface [polypeptide binding]; other site 224914002860 metal binding site [ion binding]; metal-binding site 224914002861 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 224914002862 homodimer interface [polypeptide binding]; other site 224914002863 active site 224914002864 putative chemical substrate binding site [chemical binding]; other site 224914002865 metal binding site [ion binding]; metal-binding site 224914002866 UDP-glucose 4-epimerase; Region: PLN02240 224914002867 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 224914002868 NAD binding site [chemical binding]; other site 224914002869 homodimer interface [polypeptide binding]; other site 224914002870 active site 224914002871 substrate binding site [chemical binding]; other site 224914002872 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 224914002873 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 224914002874 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 224914002875 Tetratricopeptide repeat; Region: TPR_1; pfam00515 224914002876 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 224914002877 S-adenosylmethionine binding site [chemical binding]; other site 224914002878 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 224914002879 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 224914002880 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 224914002881 active site 224914002882 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 224914002883 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 224914002884 putative NAD(P) binding site [chemical binding]; other site 224914002885 putative substrate binding site [chemical binding]; other site 224914002886 catalytic Zn binding site [ion binding]; other site 224914002887 structural Zn binding site [ion binding]; other site 224914002888 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 224914002889 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 224914002890 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 224914002891 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 224914002892 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 224914002893 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 224914002894 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 224914002895 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 224914002896 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 224914002897 metal binding site [ion binding]; metal-binding site 224914002898 active site 224914002899 I-site; other site 224914002900 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 224914002901 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224914002902 Coenzyme A binding pocket [chemical binding]; other site 224914002903 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 224914002904 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 224914002905 active site residue [active] 224914002906 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 224914002907 active site residue [active] 224914002908 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 224914002909 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 224914002910 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 224914002911 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 224914002912 dimer interface [polypeptide binding]; other site 224914002913 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914002914 catalytic residue [active] 224914002915 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 224914002916 DEAD-like helicases superfamily; Region: DEXDc; smart00487 224914002917 ATP binding site [chemical binding]; other site 224914002918 Mg++ binding site [ion binding]; other site 224914002919 motif III; other site 224914002920 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 224914002921 nucleotide binding region [chemical binding]; other site 224914002922 ATP-binding site [chemical binding]; other site 224914002923 threonine dehydratase; Validated; Region: PRK08639 224914002924 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 224914002925 tetramer interface [polypeptide binding]; other site 224914002926 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914002927 catalytic residue [active] 224914002928 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 224914002929 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 224914002930 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 224914002931 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 224914002932 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 224914002933 putative MPT binding site; other site 224914002934 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 224914002935 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 224914002936 Ligand Binding Site [chemical binding]; other site 224914002937 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 224914002938 active site 224914002939 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 224914002940 nudix motif; other site 224914002941 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 224914002942 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 224914002943 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 224914002944 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 224914002945 active site 224914002946 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 224914002947 TSCPD domain; Region: TSCPD; pfam12637 224914002948 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 224914002949 Mechanosensitive ion channel; Region: MS_channel; pfam00924 224914002950 Beta-lactamase; Region: Beta-lactamase; pfam00144 224914002951 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 224914002952 Predicted flavoproteins [General function prediction only]; Region: COG2081 224914002953 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 224914002954 PAS domain; Region: PAS_9; pfam13426 224914002955 PAS domain; Region: PAS; smart00091 224914002956 PAS fold; Region: PAS_4; pfam08448 224914002957 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 224914002958 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 224914002959 dimer interface [polypeptide binding]; other site 224914002960 phosphorylation site [posttranslational modification] 224914002961 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 224914002962 ATP binding site [chemical binding]; other site 224914002963 Mg2+ binding site [ion binding]; other site 224914002964 G-X-G motif; other site 224914002965 Response regulator receiver domain; Region: Response_reg; pfam00072 224914002966 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 224914002967 active site 224914002968 phosphorylation site [posttranslational modification] 224914002969 intermolecular recognition site; other site 224914002970 dimerization interface [polypeptide binding]; other site 224914002971 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 224914002972 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 224914002973 catalytic core [active] 224914002974 Predicted ATPase [General function prediction only]; Region: COG3106 224914002975 Predicted membrane protein [Function unknown]; Region: COG3768 224914002976 Domain of unknown function (DUF697); Region: DUF697; cl12064 224914002977 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 224914002978 catalytic center binding site [active] 224914002979 ATP binding site [chemical binding]; other site 224914002980 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 224914002981 homooctamer interface [polypeptide binding]; other site 224914002982 active site 224914002983 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 224914002984 dihydropteroate synthase; Region: DHPS; TIGR01496 224914002985 substrate binding pocket [chemical binding]; other site 224914002986 dimer interface [polypeptide binding]; other site 224914002987 inhibitor binding site; inhibition site 224914002988 Predicted secreted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5661 224914002989 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 224914002990 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 224914002991 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 224914002992 catalytic loop [active] 224914002993 iron binding site [ion binding]; other site 224914002994 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 224914002995 ABC-type uncharacterized transport system, auxiliary component [General function prediction only]; Region: COG3218 224914002996 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 224914002997 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 224914002998 mce related protein; Region: MCE; pfam02470 224914002999 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 224914003000 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 224914003001 Walker A/P-loop; other site 224914003002 ATP binding site [chemical binding]; other site 224914003003 Q-loop/lid; other site 224914003004 ABC transporter signature motif; other site 224914003005 Walker B; other site 224914003006 D-loop; other site 224914003007 H-loop/switch region; other site 224914003008 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 224914003009 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 224914003010 Permease; Region: Permease; pfam02405 224914003011 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 224914003012 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 224914003013 active site 224914003014 malic enzyme; Reviewed; Region: PRK12862 224914003015 Malic enzyme, N-terminal domain; Region: malic; pfam00390 224914003016 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 224914003017 putative NAD(P) binding site [chemical binding]; other site 224914003018 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 224914003019 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 224914003020 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 224914003021 active site 224914003022 HIGH motif; other site 224914003023 nucleotide binding site [chemical binding]; other site 224914003024 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 224914003025 active site 224914003026 KMSKS motif; other site 224914003027 NAD synthetase; Provisional; Region: PRK13981 224914003028 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 224914003029 multimer interface [polypeptide binding]; other site 224914003030 active site 224914003031 catalytic triad [active] 224914003032 protein interface 1 [polypeptide binding]; other site 224914003033 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 224914003034 homodimer interface [polypeptide binding]; other site 224914003035 NAD binding pocket [chemical binding]; other site 224914003036 ATP binding pocket [chemical binding]; other site 224914003037 Mg binding site [ion binding]; other site 224914003038 active-site loop [active] 224914003039 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 224914003040 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 224914003041 glutathione reductase; Validated; Region: PRK06116 224914003042 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 224914003043 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 224914003044 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 224914003045 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3184 224914003046 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 224914003047 tetramer (dimer of dimers) interface [polypeptide binding]; other site 224914003048 active site 224914003049 dimer interface [polypeptide binding]; other site 224914003050 phosphoglycolate phosphatase; Provisional; Region: PRK13222 224914003051 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 224914003052 motif II; other site 224914003053 Uncharacterized conserved protein [Function unknown]; Region: COG0062 224914003054 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 224914003055 putative substrate binding site [chemical binding]; other site 224914003056 putative ATP binding site [chemical binding]; other site 224914003057 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 224914003058 Nitrogen regulatory protein P-II; Region: P-II; smart00938 224914003059 glutamine synthetase; Provisional; Region: glnA; PRK09469 224914003060 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 224914003061 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 224914003062 Chaperone required for the assembly of the mitochondrial F1-ATPase [Posttranslational modification, protein turnover, chaperones]; Region: COG5387 224914003063 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 224914003064 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 224914003065 motif I; other site 224914003066 active site 224914003067 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 224914003068 motif II; other site 224914003069 EamA-like transporter family; Region: EamA; pfam00892 224914003070 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 224914003071 EamA-like transporter family; Region: EamA; pfam00892 224914003072 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 224914003073 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 224914003074 active site 224914003075 cyclic beta-1,2-glucan ABC transporter; Provisional; Region: PRK13657 224914003076 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 224914003077 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224914003078 Walker A/P-loop; other site 224914003079 ATP binding site [chemical binding]; other site 224914003080 Q-loop/lid; other site 224914003081 ABC transporter signature motif; other site 224914003082 Walker B; other site 224914003083 D-loop; other site 224914003084 H-loop/switch region; other site 224914003085 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 224914003086 putative hydrolase; Provisional; Region: PRK02113 224914003087 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 224914003088 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 224914003089 active site 224914003090 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 224914003091 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 224914003092 active site 224914003093 HIGH motif; other site 224914003094 KMSKS motif; other site 224914003095 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 224914003096 tRNA binding surface [nucleotide binding]; other site 224914003097 anticodon binding site; other site 224914003098 DNA polymerase III subunit delta'; Validated; Region: PRK09112 224914003099 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 224914003100 DNA polymerase III subunit delta'; Validated; Region: PRK08485 224914003101 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 224914003102 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 224914003103 TMP-binding site; other site 224914003104 ATP-binding site [chemical binding]; other site 224914003105 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 224914003106 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 224914003107 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 224914003108 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 224914003109 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 224914003110 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 224914003111 ArsC family; Region: ArsC; pfam03960 224914003112 catalytic residues [active] 224914003113 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 224914003114 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 224914003115 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 224914003116 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 224914003117 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 224914003118 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 224914003119 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 224914003120 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 224914003121 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 224914003122 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 224914003123 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 224914003124 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 224914003125 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2929 224914003126 Uncharacterized conserved protein [Function unknown]; Region: COG3422 224914003127 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 224914003128 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 224914003129 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 224914003130 active site 224914003131 Int/Topo IB signature motif; other site 224914003132 catalytic residues [active] 224914003133 DNA binding site [nucleotide binding] 224914003134 Transglycosylase associated protein; Region: Transgly_assoc; pfam04226 224914003135 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 224914003136 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 224914003137 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 224914003138 fumarate hydratase; Provisional; Region: PRK15389 224914003139 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 224914003140 Fumarase C-terminus; Region: Fumerase_C; pfam05683 224914003141 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 224914003142 hypothetical protein; Provisional; Region: PRK06753 224914003143 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 224914003144 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 224914003145 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 224914003146 FeS/SAM binding site; other site 224914003147 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 224914003148 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 224914003149 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 224914003150 GTP binding site; other site 224914003151 Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]; Region: MobB; COG1763 224914003152 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 224914003153 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 224914003154 substrate binding pocket [chemical binding]; other site 224914003155 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 224914003156 putative substrate binding pocket (H-site) [chemical binding]; other site 224914003157 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 224914003158 putative N-terminal domain interface [polypeptide binding]; other site 224914003159 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 224914003160 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 224914003161 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 224914003162 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 224914003163 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 224914003164 HIGH motif; other site 224914003165 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 224914003166 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 224914003167 active site 224914003168 KMSKS motif; other site 224914003169 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 224914003170 tRNA binding surface [nucleotide binding]; other site 224914003171 anticodon binding site; other site 224914003172 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 224914003173 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3827 224914003174 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 224914003175 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 224914003176 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 224914003177 S-adenosylmethionine binding site [chemical binding]; other site 224914003178 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 224914003179 metal-binding site [ion binding] 224914003180 FeS assembly scaffold SufA; Region: sufA_proteo; TIGR01997 224914003181 helicase 45; Provisional; Region: PTZ00424 224914003182 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 224914003183 ATP binding site [chemical binding]; other site 224914003184 Mg++ binding site [ion binding]; other site 224914003185 motif III; other site 224914003186 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 224914003187 nucleotide binding region [chemical binding]; other site 224914003188 ATP-binding site [chemical binding]; other site 224914003189 ATP-NAD kinase; Region: NAD_kinase; pfam01513 224914003190 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 224914003191 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 224914003192 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 224914003193 active site 224914003194 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 224914003195 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 224914003196 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 224914003197 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 224914003198 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 224914003199 catalytic residue [active] 224914003200 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 224914003201 FeS assembly protein SufD; Region: sufD; TIGR01981 224914003202 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 224914003203 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 224914003204 Walker A/P-loop; other site 224914003205 ATP binding site [chemical binding]; other site 224914003206 Q-loop/lid; other site 224914003207 ABC transporter signature motif; other site 224914003208 Walker B; other site 224914003209 D-loop; other site 224914003210 H-loop/switch region; other site 224914003211 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 224914003212 putative ABC transporter; Region: ycf24; CHL00085 224914003213 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 224914003214 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 224914003215 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 224914003216 catalytic residue [active] 224914003217 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 224914003218 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 224914003219 Predicted molecular chaperone distantly related to HSP70-fold metalloproteases [Posttranslational modification, protein turnover, chaperones]; Region: COG2377 224914003220 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 224914003221 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 224914003222 active site 224914003223 HIGH motif; other site 224914003224 dimer interface [polypeptide binding]; other site 224914003225 KMSKS motif; other site 224914003226 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 224914003227 RNA binding surface [nucleotide binding]; other site 224914003228 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 224914003229 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 224914003230 catalytic triad [active] 224914003231 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 224914003232 dinuclear metal binding motif [ion binding]; other site 224914003233 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 224914003234 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 224914003235 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 224914003236 peptide chain release factor 2; Provisional; Region: PRK07342 224914003237 This domain is found in peptide chain release factors; Region: PCRF; smart00937 224914003238 RF-1 domain; Region: RF-1; pfam00472 224914003239 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 224914003240 Transglycosylase; Region: Transgly; pfam00912 224914003241 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 224914003242 AMIN domain; Region: AMIN; pfam11741 224914003243 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 224914003244 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 224914003245 active site 224914003246 metal binding site [ion binding]; metal-binding site 224914003247 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 224914003248 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 224914003249 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 224914003250 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 224914003251 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914003252 homodimer interface [polypeptide binding]; other site 224914003253 catalytic residue [active] 224914003254 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 224914003255 Peptidase family M48; Region: Peptidase_M48; cl12018 224914003256 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 224914003257 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 224914003258 catalytic residues [active] 224914003259 Dehydroquinase class II; Region: DHquinase_II; pfam01220 224914003260 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 224914003261 trimer interface [polypeptide binding]; other site 224914003262 active site 224914003263 dimer interface [polypeptide binding]; other site 224914003264 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 224914003265 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 224914003266 carboxyltransferase (CT) interaction site; other site 224914003267 biotinylation site [posttranslational modification]; other site 224914003268 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 224914003269 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 224914003270 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 224914003271 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 224914003272 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 224914003273 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 224914003274 NADH dehydrogenase; Validated; Region: PRK08183 224914003275 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 224914003276 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 224914003277 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 224914003278 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 224914003279 GatB domain; Region: GatB_Yqey; smart00845 224914003280 trigger factor; Provisional; Region: tig; PRK01490 224914003281 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 224914003282 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 224914003283 Uncharacterized membrane-anchored protein [Function unknown]; Region: COG4929 224914003284 Predicted membrane protein [Function unknown]; Region: COG4872 224914003285 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 224914003286 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 224914003287 Glucose inhibited division protein A; Region: GIDA; pfam01134 224914003288 Phytoene/squalene synthetase [Lipid metabolism]; Region: ERG9; COG1562 224914003289 substrate binding pocket [chemical binding]; other site 224914003290 substrate-Mg2+ binding site; other site 224914003291 aspartate-rich region 1; other site 224914003292 aspartate-rich region 2; other site 224914003293 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 224914003294 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13023 224914003295 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 224914003296 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 224914003297 Protein export membrane protein; Region: SecD_SecF; pfam02355 224914003298 Preprotein translocase subunit YajC [Intracellular trafficking and secretion]; Region: YajC; COG1862 224914003299 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 224914003300 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 224914003301 Walker A motif; other site 224914003302 ATP binding site [chemical binding]; other site 224914003303 Walker B motif; other site 224914003304 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 224914003305 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224914003306 Peptidase family M23; Region: Peptidase_M23; pfam01551 224914003307 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 224914003308 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 224914003309 S-adenosylmethionine binding site [chemical binding]; other site 224914003310 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 224914003311 seryl-tRNA synthetase; Provisional; Region: PRK05431 224914003312 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 224914003313 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 224914003314 dimer interface [polypeptide binding]; other site 224914003315 active site 224914003316 motif 1; other site 224914003317 motif 2; other site 224914003318 motif 3; other site 224914003319 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 224914003320 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 224914003321 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 224914003322 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 224914003323 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 224914003324 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 224914003325 Sporulation related domain; Region: SPOR; pfam05036 224914003326 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 224914003327 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 224914003328 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 224914003329 active site 224914003330 HIGH motif; other site 224914003331 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 224914003332 KMSK motif region; other site 224914003333 tRNA binding surface [nucleotide binding]; other site 224914003334 DALR anticodon binding domain; Region: DALR_1; smart00836 224914003335 anticodon binding site; other site 224914003336 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 224914003337 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 224914003338 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 224914003339 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 224914003340 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 224914003341 putative metal binding site [ion binding]; other site 224914003342 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 224914003343 putative catalytic site [active] 224914003344 putative phosphate binding site [ion binding]; other site 224914003345 active site 224914003346 metal binding site A [ion binding]; metal-binding site 224914003347 DNA binding site [nucleotide binding] 224914003348 putative AP binding site [nucleotide binding]; other site 224914003349 putative metal binding site B [ion binding]; other site 224914003350 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 224914003351 Sel1-like repeats; Region: SEL1; smart00671 224914003352 Staphylococcal nuclease homologues; Region: SNc; smart00318 224914003353 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 224914003354 Catalytic site; other site 224914003355 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 224914003356 putative uracil binding site [chemical binding]; other site 224914003357 putative active site [active] 224914003358 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 224914003359 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 224914003360 putative DNA binding site [nucleotide binding]; other site 224914003361 putative Zn2+ binding site [ion binding]; other site 224914003362 AsnC family; Region: AsnC_trans_reg; pfam01037 224914003363 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 224914003364 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 224914003365 putative dimer interface [polypeptide binding]; other site 224914003366 active site pocket [active] 224914003367 putative cataytic base [active] 224914003368 cobalamin synthase; Reviewed; Region: cobS; PRK00235 224914003369 Predicted Fe-S protein [General function prediction only]; Region: COG3313 224914003370 Predicted aspartyl protease [General function prediction only]; Region: COG3577 224914003371 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 224914003372 catalytic motif [active] 224914003373 Catalytic residue [active] 224914003374 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 224914003375 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 224914003376 FMN binding site [chemical binding]; other site 224914003377 active site 224914003378 catalytic residues [active] 224914003379 substrate binding site [chemical binding]; other site 224914003380 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 224914003381 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 224914003382 substrate binding pocket [chemical binding]; other site 224914003383 membrane-bound complex binding site; other site 224914003384 hinge residues; other site 224914003385 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 224914003386 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 224914003387 active site 224914003388 motif I; other site 224914003389 motif II; other site 224914003390 Metal-dependent hydrolase involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3454 224914003391 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 224914003392 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 224914003393 active site 224914003394 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 224914003395 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 224914003396 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 224914003397 substrate binding site [chemical binding]; other site 224914003398 ATP binding site [chemical binding]; other site 224914003399 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 224914003400 active site 224914003401 catalytic residues [active] 224914003402 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 224914003403 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 224914003404 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 224914003405 acyl carrier protein; Provisional; Region: PRK06508 224914003406 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 224914003407 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 224914003408 active site 224914003409 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 224914003410 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 224914003411 dimer interface [polypeptide binding]; other site 224914003412 active site 224914003413 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 224914003414 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH_like1; cd08266 224914003415 putative NAD(P) binding site [chemical binding]; other site 224914003416 structural Zn binding site [ion binding]; other site 224914003417 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 224914003418 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 224914003419 putative acyl-acceptor binding pocket; other site 224914003420 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 224914003421 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 224914003422 substrate binding site [chemical binding]; other site 224914003423 hexamer interface [polypeptide binding]; other site 224914003424 metal binding site [ion binding]; metal-binding site 224914003425 adenylosuccinate lyase; Provisional; Region: PRK07492 224914003426 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 224914003427 tetramer interface [polypeptide binding]; other site 224914003428 active site 224914003429 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 224914003430 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_12; cd07255 224914003431 putative metal binding site [ion binding]; other site 224914003432 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 224914003433 active site 224914003434 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 224914003435 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 224914003436 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 224914003437 Uncharacterized conserved protein [Function unknown]; Region: COG5467 224914003438 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 224914003439 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 224914003440 ATP binding site [chemical binding]; other site 224914003441 active site 224914003442 substrate binding site [chemical binding]; other site 224914003443 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 224914003444 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 224914003445 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 224914003446 putative active site [active] 224914003447 catalytic triad [active] 224914003448 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 224914003449 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 224914003450 C-terminal domain interface [polypeptide binding]; other site 224914003451 GSH binding site (G-site) [chemical binding]; other site 224914003452 dimer interface [polypeptide binding]; other site 224914003453 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 224914003454 N-terminal domain interface [polypeptide binding]; other site 224914003455 dimer interface [polypeptide binding]; other site 224914003456 substrate binding pocket (H-site) [chemical binding]; other site 224914003457 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 224914003458 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 224914003459 dimerization interface [polypeptide binding]; other site 224914003460 ATP binding site [chemical binding]; other site 224914003461 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 224914003462 dimerization interface [polypeptide binding]; other site 224914003463 ATP binding site [chemical binding]; other site 224914003464 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 224914003465 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 224914003466 putative GSH binding site [chemical binding]; other site 224914003467 catalytic residues [active] 224914003468 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 224914003469 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 224914003470 putative substrate translocation pore; other site 224914003471 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 224914003472 PAP-phosphatase_like domains. PAP-phosphatase is a member of the inositol monophosphatase family, and catalyses the hydrolysis of 3'-phosphoadenosine-5'-phosphate (PAP) to AMP. In Saccharomyces cerevisiae, HAL2 (MET22) is involved in methionine...; Region: PAP_phosphatase; cd01517 224914003473 active site 224914003474 putative lithium-binding site [ion binding]; other site 224914003475 substrate binding site [chemical binding]; other site 224914003476 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 224914003477 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 224914003478 Ligand Binding Site [chemical binding]; other site 224914003479 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 224914003480 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 224914003481 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 224914003482 RNA binding surface [nucleotide binding]; other site 224914003483 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3921 224914003484 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 224914003485 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 224914003486 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 224914003487 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 224914003488 putative active site [active] 224914003489 putative PHP Thumb interface [polypeptide binding]; other site 224914003490 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 224914003491 generic binding surface II; other site 224914003492 generic binding surface I; other site 224914003493 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 224914003494 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 224914003495 Walker A/P-loop; other site 224914003496 ATP binding site [chemical binding]; other site 224914003497 Q-loop/lid; other site 224914003498 ABC transporter signature motif; other site 224914003499 Walker B; other site 224914003500 D-loop; other site 224914003501 H-loop/switch region; other site 224914003502 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 224914003503 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 224914003504 FtsX-like permease family; Region: FtsX; pfam02687 224914003505 prolyl-tRNA synthetase; Provisional; Region: PRK12325 224914003506 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 224914003507 dimer interface [polypeptide binding]; other site 224914003508 motif 1; other site 224914003509 active site 224914003510 motif 2; other site 224914003511 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 224914003512 active site 224914003513 motif 3; other site 224914003514 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 224914003515 anticodon binding site; other site 224914003516 Predicted secreted protein [Function unknown]; Region: COG5454 224914003517 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 224914003518 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 224914003519 dimer interface [polypeptide binding]; other site 224914003520 substrate binding site [chemical binding]; other site 224914003521 metal binding site [ion binding]; metal-binding site 224914003522 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 224914003523 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 224914003524 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 224914003525 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 224914003526 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 224914003527 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 224914003528 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 224914003529 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 224914003530 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 224914003531 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 224914003532 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 224914003533 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 224914003534 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 224914003535 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 224914003536 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 224914003537 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 224914003538 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 224914003539 4Fe-4S binding domain; Region: Fer4; pfam00037 224914003540 4Fe-4S binding domain; Region: Fer4; pfam00037 224914003541 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 224914003542 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 224914003543 NADH dehydrogenase subunit G; Validated; Region: PRK09130 224914003544 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 224914003545 catalytic loop [active] 224914003546 iron binding site [ion binding]; other site 224914003547 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 224914003548 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 224914003549 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 224914003550 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 224914003551 SLBB domain; Region: SLBB; pfam10531 224914003552 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 224914003553 NADH:ubiquinone oxidoreductase 24 kD subunit [Energy production and conversion]; Region: NuoE; COG1905 224914003554 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 224914003555 putative dimer interface [polypeptide binding]; other site 224914003556 [2Fe-2S] cluster binding site [ion binding]; other site 224914003557 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 224914003558 NADH dehydrogenase subunit D; Validated; Region: PRK06075 224914003559 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 224914003560 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 224914003561 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 224914003562 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 224914003563 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 224914003564 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 224914003565 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 224914003566 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 224914003567 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 224914003568 homodimer interface [polypeptide binding]; other site 224914003569 substrate-cofactor binding pocket; other site 224914003570 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914003571 catalytic residue [active] 224914003572 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 224914003573 CoenzymeA binding site [chemical binding]; other site 224914003574 subunit interaction site [polypeptide binding]; other site 224914003575 PHB binding site; other site 224914003576 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 224914003577 23S rRNA interface [nucleotide binding]; other site 224914003578 L3 interface [polypeptide binding]; other site 224914003579 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 224914003580 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 224914003581 oligomer interface [polypeptide binding]; other site 224914003582 putative active site [active] 224914003583 Mn binding site [ion binding]; other site 224914003584 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 224914003585 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 224914003586 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 224914003587 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 224914003588 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 224914003589 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 224914003590 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 224914003591 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 224914003592 SLBB domain; Region: SLBB; pfam10531 224914003593 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 224914003594 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 224914003595 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 224914003596 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 224914003597 DNA binding residues [nucleotide binding] 224914003598 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 224914003599 IHF dimer interface [polypeptide binding]; other site 224914003600 IHF - DNA interface [nucleotide binding]; other site 224914003601 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 224914003602 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 224914003603 dimer interface [polypeptide binding]; other site 224914003604 active site 224914003605 CoA binding pocket [chemical binding]; other site 224914003606 putative phosphate acyltransferase; Provisional; Region: PRK05331 224914003607 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 224914003608 Uncharacterized conserved protein [Function unknown]; Region: COG5452 224914003609 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 224914003610 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 224914003611 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; COG3808 224914003612 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 224914003613 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 224914003614 putative RNA binding site [nucleotide binding]; other site 224914003615 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 224914003616 homopentamer interface [polypeptide binding]; other site 224914003617 active site 224914003618 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 224914003619 Lumazine binding domain; Region: Lum_binding; pfam00677 224914003620 Lumazine binding domain; Region: Lum_binding; pfam00677 224914003621 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 224914003622 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 224914003623 catalytic motif [active] 224914003624 Zn binding site [ion binding]; other site 224914003625 RibD C-terminal domain; Region: RibD_C; cl17279 224914003626 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 224914003627 ATP cone domain; Region: ATP-cone; pfam03477 224914003628 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 224914003629 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 224914003630 active site 224914003631 Glycine/serine hydroxymethyltransferase [Amino acid transport and metabolism]; Region: GlyA; COG0112 224914003632 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 224914003633 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 224914003634 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 224914003635 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 224914003636 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 224914003637 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 224914003638 Transcriptional regulators [Transcription]; Region: MarR; COG1846 224914003639 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 224914003640 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 224914003641 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 224914003642 substrate binding site [chemical binding]; other site 224914003643 oxyanion hole (OAH) forming residues; other site 224914003644 trimer interface [polypeptide binding]; other site 224914003645 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 224914003646 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 224914003647 dimer interface [polypeptide binding]; other site 224914003648 allosteric magnesium binding site [ion binding]; other site 224914003649 active site 224914003650 aspartate-rich active site metal binding site; other site 224914003651 Schiff base residues; other site 224914003652 Predicted membrane protein/domain [Function unknown]; Region: COG1714 224914003653 Putative arginyl-tRNA:protein arginylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG2935 224914003654 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 224914003655 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 224914003656 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 224914003657 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 224914003658 CAP-like domain; other site 224914003659 active site 224914003660 primary dimer interface [polypeptide binding]; other site 224914003661 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 224914003662 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 224914003663 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 224914003664 dimer interface [polypeptide binding]; other site 224914003665 anticodon binding site; other site 224914003666 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 224914003667 homodimer interface [polypeptide binding]; other site 224914003668 motif 1; other site 224914003669 active site 224914003670 motif 2; other site 224914003671 GAD domain; Region: GAD; pfam02938 224914003672 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 224914003673 active site 224914003674 motif 3; other site 224914003675 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 224914003676 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 224914003677 catalytic site [active] 224914003678 putative active site [active] 224914003679 putative substrate binding site [chemical binding]; other site 224914003680 HRDC domain; Region: HRDC; pfam00570 224914003681 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 224914003682 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 224914003683 polyphosphate kinase; Provisional; Region: PRK05443 224914003684 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 224914003685 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 224914003686 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 224914003687 putative domain interface [polypeptide binding]; other site 224914003688 putative active site [active] 224914003689 catalytic site [active] 224914003690 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 224914003691 putative domain interface [polypeptide binding]; other site 224914003692 putative active site [active] 224914003693 catalytic site [active] 224914003694 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 224914003695 salicylate hydroxylase; Provisional; Region: PRK06475 224914003696 salicylate hydroxylase; Provisional; Region: PRK08163 224914003697 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 224914003698 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 224914003699 Walker A/P-loop; other site 224914003700 ATP binding site [chemical binding]; other site 224914003701 Q-loop/lid; other site 224914003702 ABC transporter signature motif; other site 224914003703 Walker B; other site 224914003704 D-loop; other site 224914003705 H-loop/switch region; other site 224914003706 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 224914003707 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914003708 dimer interface [polypeptide binding]; other site 224914003709 conserved gate region; other site 224914003710 putative PBP binding loops; other site 224914003711 ABC-ATPase subunit interface; other site 224914003712 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 224914003713 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914003714 conserved gate region; other site 224914003715 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914003716 putative PBP binding loops; other site 224914003717 dimer interface [polypeptide binding]; other site 224914003718 ABC-ATPase subunit interface; other site 224914003719 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 224914003720 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 224914003721 substrate binding pocket [chemical binding]; other site 224914003722 membrane-bound complex binding site; other site 224914003723 hinge residues; other site 224914003724 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 224914003725 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 224914003726 active site 224914003727 cystathionine beta-lyase; Provisional; Region: PRK05967 224914003728 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 224914003729 homodimer interface [polypeptide binding]; other site 224914003730 substrate-cofactor binding pocket; other site 224914003731 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914003732 catalytic residue [active] 224914003733 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 224914003734 Bacterial SH3 domain; Region: SH3_3; pfam08239 224914003735 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]; Region: COG4916 224914003736 TIR domain; Region: TIR_2; pfam13676 224914003737 Domain of unknown function (DUF955); Region: DUF955; pfam06114 224914003738 AAA ATPase domain; Region: AAA_16; pfam13191 224914003739 AAA domain; Region: AAA_22; pfam13401 224914003740 Integrase core domain; Region: rve; pfam00665 224914003741 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 224914003742 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 224914003743 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 224914003744 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 224914003745 non-specific DNA binding site [nucleotide binding]; other site 224914003746 salt bridge; other site 224914003747 sequence-specific DNA binding site [nucleotide binding]; other site 224914003748 Uncharacterized conserved protein [Function unknown]; Region: COG4933 224914003749 Archaeal adenylate kinase [Nucleotide transport and metabolism]; Region: AdkA; COG2019 224914003750 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 224914003751 active site 224914003752 catalytic site [active] 224914003753 substrate binding site [chemical binding]; other site 224914003754 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 224914003755 L-lactate permease; Region: Lactate_perm; cl00701 224914003756 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 224914003757 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 224914003758 L-lactate permease; Region: Lactate_perm; cl00701 224914003759 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 224914003760 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 224914003761 putative NAD(P) binding site [chemical binding]; other site 224914003762 putative active site [active] 224914003763 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 224914003764 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 224914003765 NAD(P) binding site [chemical binding]; other site 224914003766 active site 224914003767 hypothetical protein; Validated; Region: PRK09087 224914003768 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 224914003769 Walker A motif; other site 224914003770 ATP binding site [chemical binding]; other site 224914003771 Walker B motif; other site 224914003772 arginine finger; other site 224914003773 Domain of unknown function DUF20; Region: UPF0118; pfam01594 224914003774 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 224914003775 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 224914003776 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 224914003777 dimerization interface [polypeptide binding]; other site 224914003778 putative ATP binding site [chemical binding]; other site 224914003779 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 224914003780 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 224914003781 active site 224914003782 substrate binding site [chemical binding]; other site 224914003783 cosubstrate binding site; other site 224914003784 catalytic site [active] 224914003785 Protein of unknown function (DUF992); Region: DUF992; pfam06186 224914003786 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 224914003787 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 224914003788 putative [4Fe-4S] binding site [ion binding]; other site 224914003789 putative molybdopterin cofactor binding site [chemical binding]; other site 224914003790 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 224914003791 putative molybdopterin cofactor binding site; other site 224914003792 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 224914003793 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 224914003794 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 224914003795 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 224914003796 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 224914003797 B1 nucleotide binding pocket [chemical binding]; other site 224914003798 B2 nucleotide binding pocket [chemical binding]; other site 224914003799 CAS motifs; other site 224914003800 active site 224914003801 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 224914003802 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 224914003803 putative C-terminal domain interface [polypeptide binding]; other site 224914003804 putative GSH binding site (G-site) [chemical binding]; other site 224914003805 putative dimer interface [polypeptide binding]; other site 224914003806 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 224914003807 dimer interface [polypeptide binding]; other site 224914003808 N-terminal domain interface [polypeptide binding]; other site 224914003809 putative substrate binding pocket (H-site) [chemical binding]; other site 224914003810 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 224914003811 short chain dehydrogenase; Provisional; Region: PRK09134 224914003812 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 224914003813 NADP binding site [chemical binding]; other site 224914003814 substrate binding pocket [chemical binding]; other site 224914003815 active site 224914003816 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 224914003817 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 224914003818 GIY-YIG motif/motif A; other site 224914003819 active site 224914003820 catalytic site [active] 224914003821 putative DNA binding site [nucleotide binding]; other site 224914003822 metal binding site [ion binding]; metal-binding site 224914003823 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 224914003824 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 224914003825 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 224914003826 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 224914003827 MoaE interaction surface [polypeptide binding]; other site 224914003828 MoeB interaction surface [polypeptide binding]; other site 224914003829 thiocarboxylated glycine; other site 224914003830 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 224914003831 MoaE homodimer interface [polypeptide binding]; other site 224914003832 MoaD interaction [polypeptide binding]; other site 224914003833 active site residues [active] 224914003834 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 224914003835 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 224914003836 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 224914003837 active site 224914003838 multimer interface [polypeptide binding]; other site 224914003839 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DinB; COG2318 224914003840 DinB superfamily; Region: DinB_2; pfam12867 224914003841 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 224914003842 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 224914003843 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224914003844 Walker A/P-loop; other site 224914003845 ATP binding site [chemical binding]; other site 224914003846 ABC transporter signature motif; other site 224914003847 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 224914003848 Walker B; other site 224914003849 D-loop; other site 224914003850 ABC transporter; Region: ABC_tran_2; pfam12848 224914003851 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 224914003852 DNA polymerase III subunit chi; Validated; Region: PRK05728 224914003853 multifunctional aminopeptidase A; Provisional; Region: PRK00913 224914003854 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 224914003855 interface (dimer of trimers) [polypeptide binding]; other site 224914003856 Substrate-binding/catalytic site; other site 224914003857 Zn-binding sites [ion binding]; other site 224914003858 Predicted permeases [General function prediction only]; Region: COG0795 224914003859 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 224914003860 Predicted permeases [General function prediction only]; Region: COG0795 224914003861 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 224914003862 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 224914003863 OstA-like protein; Region: OstA; cl00844 224914003864 Organic solvent tolerance protein; Region: OstA_C; pfam04453 224914003865 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 224914003866 SurA N-terminal domain; Region: SurA_N; pfam09312 224914003867 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 224914003868 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 224914003869 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 224914003870 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 224914003871 S-adenosylmethionine binding site [chemical binding]; other site 224914003872 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 224914003873 Peptidase family M23; Region: Peptidase_M23; pfam01551 224914003874 Predicted permeases [General function prediction only]; Region: RarD; COG2962 224914003875 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 224914003876 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 224914003877 active site 224914003878 catalytic residues [active] 224914003879 metal binding site [ion binding]; metal-binding site 224914003880 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 224914003881 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 224914003882 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 224914003883 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 224914003884 active site 224914003885 HIGH motif; other site 224914003886 nucleotide binding site [chemical binding]; other site 224914003887 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 224914003888 KMSKS motif; other site 224914003889 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 224914003890 Lysine efflux permease [General function prediction only]; Region: COG1279 224914003891 Uncharacterized conserved protein [Function unknown]; Region: COG2135 224914003892 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 224914003893 nudix motif; other site 224914003894 Predicted secreted protein [Function unknown]; Region: COG5451 224914003895 dihydroorotase; Validated; Region: PRK09060 224914003896 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 224914003897 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 224914003898 active site 224914003899 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 224914003900 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 224914003901 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 224914003902 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 224914003903 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 224914003904 Recombination protein O N terminal; Region: RecO_N; pfam11967 224914003905 DNA repair protein RecO; Region: reco; TIGR00613 224914003906 Recombination protein O C terminal; Region: RecO_C; pfam02565 224914003907 GTPase Era; Reviewed; Region: era; PRK00089 224914003908 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 224914003909 G1 box; other site 224914003910 GTP/Mg2+ binding site [chemical binding]; other site 224914003911 Switch I region; other site 224914003912 G2 box; other site 224914003913 Switch II region; other site 224914003914 G3 box; other site 224914003915 G4 box; other site 224914003916 G5 box; other site 224914003917 KH domain; Region: KH_2; pfam07650 224914003918 ribonuclease III; Reviewed; Region: PRK12371 224914003919 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 224914003920 dimerization interface [polypeptide binding]; other site 224914003921 active site 224914003922 metal binding site [ion binding]; metal-binding site 224914003923 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 224914003924 dsRNA binding site [nucleotide binding]; other site 224914003925 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 224914003926 Catalytic site [active] 224914003927 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 224914003928 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 224914003929 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 224914003930 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3216 224914003931 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 224914003932 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224914003933 Helix-turn-helix domain; Region: HTH_18; pfam12833 224914003934 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224914003935 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 224914003936 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224914003937 putative substrate translocation pore; other site 224914003938 coproporphyrinogen III oxidase; Provisional; Region: PRK13347 224914003939 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 224914003940 FeS/SAM binding site; other site 224914003941 HemN C-terminal domain; Region: HemN_C; pfam06969 224914003942 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 224914003943 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 224914003944 ligand binding site [chemical binding]; other site 224914003945 flexible hinge region; other site 224914003946 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 224914003947 putative switch regulator; other site 224914003948 non-specific DNA interactions [nucleotide binding]; other site 224914003949 DNA binding site [nucleotide binding] 224914003950 sequence specific DNA binding site [nucleotide binding]; other site 224914003951 putative cAMP binding site [chemical binding]; other site 224914003952 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 224914003953 active site 224914003954 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 224914003955 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 224914003956 Zn2+ binding site [ion binding]; other site 224914003957 Mg2+ binding site [ion binding]; other site 224914003958 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 224914003959 synthetase active site [active] 224914003960 NTP binding site [chemical binding]; other site 224914003961 metal binding site [ion binding]; metal-binding site 224914003962 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 224914003963 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 224914003964 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 224914003965 Uncharacterized conserved protein [Function unknown]; Region: COG1432 224914003966 LabA_like proteins; Region: LabA; cd10911 224914003967 putative metal binding site [ion binding]; other site 224914003968 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 224914003969 Fe-S cluster binding site [ion binding]; other site 224914003970 DNA binding site [nucleotide binding] 224914003971 active site 224914003972 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 224914003973 SmpB-tmRNA interface; other site 224914003974 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 224914003975 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 224914003976 dimer interface [polypeptide binding]; other site 224914003977 active site 224914003978 catalytic residue [active] 224914003979 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 224914003980 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 224914003981 N-acetyl-D-glucosamine binding site [chemical binding]; other site 224914003982 catalytic residue [active] 224914003983 Uncharacterized conserved protein [Function unknown]; Region: COG3743 224914003984 Porin subfamily; Region: Porin_2; pfam02530 224914003985 Porin subfamily; Region: Porin_2; pfam02530 224914003986 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 224914003987 active site 224914003988 DNA binding site [nucleotide binding] 224914003989 Int/Topo IB signature motif; other site 224914003990 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 224914003991 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914003992 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 224914003993 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 224914003994 catalytic residue [active] 224914003995 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 224914003996 Uncharacterized conserved protein [Function unknown]; Region: COG1284 224914003997 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 224914003998 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 224914003999 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 224914004000 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 224914004001 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 224914004002 C-terminal domain interface [polypeptide binding]; other site 224914004003 GSH binding site (G-site) [chemical binding]; other site 224914004004 dimer interface [polypeptide binding]; other site 224914004005 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 224914004006 N-terminal domain interface [polypeptide binding]; other site 224914004007 putative dimer interface [polypeptide binding]; other site 224914004008 active site 224914004009 AMP nucleosidase; Provisional; Region: PRK08292 224914004010 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 224914004011 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 224914004012 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3021 224914004013 putative catalytic site [active] 224914004014 putative metal binding site [ion binding]; other site 224914004015 putative phosphate binding site [ion binding]; other site 224914004016 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 224914004017 hydroxyglutarate oxidase; Provisional; Region: PRK11728 224914004018 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 224914004019 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 224914004020 Fe-S cluster binding site [ion binding]; other site 224914004021 active site 224914004022 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 224914004023 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224914004024 putative substrate translocation pore; other site 224914004025 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 224914004026 EamA-like transporter family; Region: EamA; pfam00892 224914004027 aminopeptidase N; Provisional; Region: pepN; PRK14015 224914004028 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 224914004029 active site 224914004030 Zn binding site [ion binding]; other site 224914004031 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 224914004032 PAS fold; Region: PAS_3; pfam08447 224914004033 putative active site [active] 224914004034 heme pocket [chemical binding]; other site 224914004035 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 224914004036 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 224914004037 dimer interface [polypeptide binding]; other site 224914004038 phosphorylation site [posttranslational modification] 224914004039 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 224914004040 ATP binding site [chemical binding]; other site 224914004041 Mg2+ binding site [ion binding]; other site 224914004042 G-X-G motif; other site 224914004043 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 224914004044 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cl01298 224914004045 O-Antigen ligase; Region: Wzy_C; pfam04932 224914004046 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 224914004047 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 224914004048 metal binding triad; other site 224914004049 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 224914004050 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 224914004051 metal binding triad; other site 224914004052 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 224914004053 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 224914004054 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 224914004055 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 224914004056 dimerization interface [polypeptide binding]; other site 224914004057 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 224914004058 dimer interface [polypeptide binding]; other site 224914004059 phosphorylation site [posttranslational modification] 224914004060 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 224914004061 ATP binding site [chemical binding]; other site 224914004062 Mg2+ binding site [ion binding]; other site 224914004063 G-X-G motif; other site 224914004064 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 224914004065 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 224914004066 active site 224914004067 phosphorylation site [posttranslational modification] 224914004068 intermolecular recognition site; other site 224914004069 dimerization interface [polypeptide binding]; other site 224914004070 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 224914004071 DNA binding site [nucleotide binding] 224914004072 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 224914004073 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 224914004074 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 224914004075 protein binding site [polypeptide binding]; other site 224914004076 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 224914004077 protein binding site [polypeptide binding]; other site 224914004078 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 224914004079 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 224914004080 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 224914004081 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 224914004082 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 224914004083 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 224914004084 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 224914004085 HAMP domain; Region: HAMP; pfam00672 224914004086 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 224914004087 ATP binding site [chemical binding]; other site 224914004088 Mg2+ binding site [ion binding]; other site 224914004089 G-X-G motif; other site 224914004090 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 224914004091 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 224914004092 active site 224914004093 phosphorylation site [posttranslational modification] 224914004094 intermolecular recognition site; other site 224914004095 dimerization interface [polypeptide binding]; other site 224914004096 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 224914004097 DNA binding site [nucleotide binding] 224914004098 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 224914004099 Putative phage tail protein; Region: Phage-tail_3; pfam13550 224914004100 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 224914004101 putative phage cell wall peptidase, NlpC/P60 family; Region: phage_NlpC_fam; TIGR02219 224914004102 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 224914004103 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 224914004104 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 224914004105 TIGR02217 family protein; Region: chp_TIGR02217 224914004106 Phage-related minor tail protein [Function unknown]; Region: COG5281 224914004107 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 224914004108 Predicted secreted protein [Function unknown]; Region: COG5437 224914004109 Phage-related protein [Function unknown]; Region: COG4695 224914004110 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 224914004111 Uncharacterized conserved protein [Function unknown]; Region: COG5323 224914004112 Terminase-like family; Region: Terminase_6; pfam03237 224914004113 Transglycosylase; Region: Transgly; pfam00912 224914004114 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 224914004115 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 224914004116 Uncharacterized conserved protein [Function unknown]; Region: COG5402 224914004117 Predicted integral membrane protein [Function unknown]; Region: COG5436 224914004118 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5330 224914004119 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 224914004120 Uncharacterized conserved protein [Function unknown]; Region: COG5447 224914004121 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 224914004122 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 224914004123 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 224914004124 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 224914004125 putative active site [active] 224914004126 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 224914004127 heme pocket [chemical binding]; other site 224914004128 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 224914004129 dimer interface [polypeptide binding]; other site 224914004130 phosphorylation site [posttranslational modification] 224914004131 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 224914004132 ATP binding site [chemical binding]; other site 224914004133 Mg2+ binding site [ion binding]; other site 224914004134 G-X-G motif; other site 224914004135 Flavin Reductases; Region: FlaRed; cl00801 224914004136 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 224914004137 amidase; Validated; Region: PRK05962 224914004138 amidase; Provisional; Region: PRK07056 224914004139 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 224914004140 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 224914004141 DnaA box-binding interface [nucleotide binding]; other site 224914004142 Predicted transcriptional regulator [Transcription]; Region: COG4957 224914004143 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 224914004144 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 224914004145 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 224914004146 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 224914004147 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 224914004148 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 224914004149 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 224914004150 motif II; other site 224914004151 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 224914004152 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 224914004153 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 224914004154 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 224914004155 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 224914004156 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 224914004157 putative substrate translocation pore; other site 224914004158 Transcriptional regulators [Transcription]; Region: FadR; COG2186 224914004159 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224914004160 DNA-binding site [nucleotide binding]; DNA binding site 224914004161 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 224914004162 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 224914004163 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 224914004164 Cl binding site [ion binding]; other site 224914004165 oligomer interface [polypeptide binding]; other site 224914004166 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 224914004167 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 224914004168 transcription elongation factor regulatory protein; Validated; Region: PRK06342 224914004169 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 224914004170 L-asparaginase II [Amino acid transport and metabolism]; Region: AnsA; COG4448 224914004171 transcriptional regulator BetI; Validated; Region: PRK00767 224914004172 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 224914004173 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 224914004174 choline dehydrogenase; Validated; Region: PRK02106 224914004175 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 224914004176 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 224914004177 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 224914004178 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 224914004179 tetrameric interface [polypeptide binding]; other site 224914004180 NAD binding site [chemical binding]; other site 224914004181 catalytic residues [active] 224914004182 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 224914004183 Helix-turn-helix domain; Region: HTH_18; pfam12833 224914004184 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224914004185 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 224914004186 DNA binding site [nucleotide binding] 224914004187 domain linker motif; other site 224914004188 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 224914004189 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 224914004190 putative ligand binding site [chemical binding]; other site 224914004191 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 224914004192 N- and C-terminal domain interface [polypeptide binding]; other site 224914004193 D-xylulose kinase; Region: XylB; TIGR01312 224914004194 active site 224914004195 MgATP binding site [chemical binding]; other site 224914004196 catalytic site [active] 224914004197 metal binding site [ion binding]; metal-binding site 224914004198 xylulose binding site [chemical binding]; other site 224914004199 homodimer interface [polypeptide binding]; other site 224914004200 xylose isomerase; Provisional; Region: PRK05474 224914004201 xylose isomerase; Region: xylose_isom_A; TIGR02630 224914004202 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 224914004203 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 224914004204 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 224914004205 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 224914004206 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 224914004207 Metal-binding active site; metal-binding site 224914004208 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 224914004209 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 224914004210 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 224914004211 putative ligand binding site [chemical binding]; other site 224914004212 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 224914004213 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 224914004214 TM-ABC transporter signature motif; other site 224914004215 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 224914004216 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 224914004217 Walker A/P-loop; other site 224914004218 ATP binding site [chemical binding]; other site 224914004219 Q-loop/lid; other site 224914004220 ABC transporter signature motif; other site 224914004221 Walker B; other site 224914004222 D-loop; other site 224914004223 H-loop/switch region; other site 224914004224 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 224914004225 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 224914004226 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 224914004227 putative ADP-binding pocket [chemical binding]; other site 224914004228 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; cd00249 224914004229 dimerization interface [polypeptide binding]; other site 224914004230 putative active cleft [active] 224914004231 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 224914004232 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 224914004233 Substrate binding site; other site 224914004234 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 224914004235 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 224914004236 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 224914004237 active site 224914004238 substrate binding site [chemical binding]; other site 224914004239 metal binding site [ion binding]; metal-binding site 224914004240 Integrase core domain; Region: rve; pfam00665 224914004241 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 224914004242 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 224914004243 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 224914004244 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 224914004245 Integrase core domain; Region: rve; pfam00665 224914004246 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 224914004247 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 224914004248 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 224914004249 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 224914004250 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 224914004251 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 224914004252 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 224914004253 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 224914004254 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 224914004255 Integrase core domain; Region: rve; pfam00665 224914004256 Integrase core domain; Region: rve_3; pfam13683 224914004257 Integrase core domain; Region: rve; pfam00665 224914004258 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 224914004259 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 224914004260 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 224914004261 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 224914004262 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 224914004263 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 224914004264 NADP-binding site; other site 224914004265 homotetramer interface [polypeptide binding]; other site 224914004266 substrate binding site [chemical binding]; other site 224914004267 homodimer interface [polypeptide binding]; other site 224914004268 active site 224914004269 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 224914004270 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 224914004271 inhibitor-cofactor binding pocket; inhibition site 224914004272 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914004273 catalytic residue [active] 224914004274 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 224914004275 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 224914004276 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 224914004277 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 224914004278 Walker A/P-loop; other site 224914004279 ATP binding site [chemical binding]; other site 224914004280 Q-loop/lid; other site 224914004281 ABC transporter signature motif; other site 224914004282 Walker B; other site 224914004283 D-loop; other site 224914004284 H-loop/switch region; other site 224914004285 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 224914004286 Formyltransferase, catalytic core domain; Region: FMT_core; cd08369 224914004287 active site 224914004288 substrate binding site [chemical binding]; other site 224914004289 cosubstrate binding site; other site 224914004290 catalytic site [active] 224914004291 HTH-like domain; Region: HTH_21; pfam13276 224914004292 Integrase core domain; Region: rve; pfam00665 224914004293 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 224914004294 Integrase core domain; Region: rve_3; pfam13683 224914004295 Homeodomain-like domain; Region: HTH_23; cl17451 224914004296 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 224914004297 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 224914004298 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 224914004299 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 224914004300 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 224914004301 Mg++ binding site [ion binding]; other site 224914004302 putative catalytic motif [active] 224914004303 putative substrate binding site [chemical binding]; other site 224914004304 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 224914004305 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 224914004306 NAD(P) binding site [chemical binding]; other site 224914004307 homodimer interface [polypeptide binding]; other site 224914004308 substrate binding site [chemical binding]; other site 224914004309 active site 224914004310 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 224914004311 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 224914004312 active site 224914004313 homotetramer interface [polypeptide binding]; other site 224914004314 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 224914004315 ureidoglycolate hydrolase; Provisional; Region: PRK03606 224914004316 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 224914004317 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 224914004318 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 224914004319 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 224914004320 Putative catalytic NodB homology domain of uncharacterized BH0857 protein from Bacillus halodurans and its bacterial homologs; Region: CE4_BH0857_like; cd10955 224914004321 NodB motif; other site 224914004322 putative active site [active] 224914004323 putative catalytic site [active] 224914004324 pyruvate phosphate dikinase; Provisional; Region: PRK09279 224914004325 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 224914004326 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 224914004327 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 224914004328 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 224914004329 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 224914004330 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 224914004331 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 224914004332 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 224914004333 Walker A/P-loop; other site 224914004334 ATP binding site [chemical binding]; other site 224914004335 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 224914004336 ABC transporter signature motif; other site 224914004337 Walker B; other site 224914004338 D-loop; other site 224914004339 H-loop/switch region; other site 224914004340 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 224914004341 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 224914004342 catalytic residues [active] 224914004343 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5389 224914004344 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 224914004345 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 224914004346 minor groove reading motif; other site 224914004347 helix-hairpin-helix signature motif; other site 224914004348 substrate binding pocket [chemical binding]; other site 224914004349 active site 224914004350 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 224914004351 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 224914004352 DNA binding and oxoG recognition site [nucleotide binding] 224914004353 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 224914004354 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 224914004355 motif II; other site 224914004356 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 224914004357 DNA methylase; Region: N6_N4_Mtase; pfam01555 224914004358 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 224914004359 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 224914004360 Cl- selectivity filter; other site 224914004361 Cl- binding residues [ion binding]; other site 224914004362 pore gating glutamate residue; other site 224914004363 dimer interface [polypeptide binding]; other site 224914004364 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 224914004365 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 224914004366 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 224914004367 active site 224914004368 motif I; other site 224914004369 motif II; other site 224914004370 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 224914004371 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 224914004372 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 224914004373 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 224914004374 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 224914004375 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914004376 catalytic residue [active] 224914004377 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 224914004378 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 224914004379 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 224914004380 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 224914004381 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 224914004382 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 224914004383 PAS fold; Region: PAS_3; pfam08447 224914004384 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 224914004385 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 224914004386 metal binding site [ion binding]; metal-binding site 224914004387 active site 224914004388 I-site; other site 224914004389 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 224914004390 hypothetical protein; Validated; Region: PRK00228 224914004391 Uncharacterized protein predicted to be involved in C-type cytochrome biogenesis [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4233 224914004392 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 224914004393 catalytic triad [active] 224914004394 dimer interface [polypeptide binding]; other site 224914004395 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 224914004396 RNA/DNA hybrid binding site [nucleotide binding]; other site 224914004397 active site 224914004398 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 224914004399 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 224914004400 putative active site [active] 224914004401 putative substrate binding site [chemical binding]; other site 224914004402 ATP binding site [chemical binding]; other site 224914004403 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 224914004404 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 224914004405 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 224914004406 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5349 224914004407 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 224914004408 Subunit III/VIIa interface [polypeptide binding]; other site 224914004409 Phospholipid binding site [chemical binding]; other site 224914004410 Subunit I/III interface [polypeptide binding]; other site 224914004411 Subunit III/VIb interface [polypeptide binding]; other site 224914004412 Subunit III/VIa interface; other site 224914004413 Subunit III/Vb interface [polypeptide binding]; other site 224914004414 Cytochrome oxidase assembly factor [Posttranslational modification, protein turnover, chaperones]; Region: COX11; COG3175 224914004415 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 224914004416 UbiA prenyltransferase family; Region: UbiA; pfam01040 224914004417 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 224914004418 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 224914004419 Subunit I/III interface [polypeptide binding]; other site 224914004420 D-pathway; other site 224914004421 Subunit I/VIIc interface [polypeptide binding]; other site 224914004422 Subunit I/IV interface [polypeptide binding]; other site 224914004423 Subunit I/II interface [polypeptide binding]; other site 224914004424 Low-spin heme (heme a) binding site [chemical binding]; other site 224914004425 Subunit I/VIIa interface [polypeptide binding]; other site 224914004426 Subunit I/VIa interface [polypeptide binding]; other site 224914004427 Dimer interface; other site 224914004428 Putative water exit pathway; other site 224914004429 Binuclear center (heme a3/CuB) [ion binding]; other site 224914004430 K-pathway; other site 224914004431 Subunit I/Vb interface [polypeptide binding]; other site 224914004432 Putative proton exit pathway; other site 224914004433 Subunit I/VIb interface; other site 224914004434 Subunit I/VIc interface [polypeptide binding]; other site 224914004435 Electron transfer pathway; other site 224914004436 Subunit I/VIIIb interface [polypeptide binding]; other site 224914004437 Subunit I/VIIb interface [polypeptide binding]; other site 224914004438 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 224914004439 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 224914004440 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 224914004441 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 224914004442 protease TldD; Provisional; Region: tldD; PRK10735 224914004443 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 224914004444 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 224914004445 catalytic site [active] 224914004446 G-X2-G-X-G-K; other site 224914004447 Uncharacterized stress-induced protein [Function unknown]; Region: COG1561 224914004448 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 224914004449 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 224914004450 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 224914004451 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 224914004452 dimerization interface [polypeptide binding]; other site 224914004453 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 224914004454 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 224914004455 dimer interface [polypeptide binding]; other site 224914004456 active site 224914004457 acyl carrier protein; Provisional; Region: acpP; PRK00982 224914004458 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 224914004459 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 224914004460 NAD(P) binding site [chemical binding]; other site 224914004461 homotetramer interface [polypeptide binding]; other site 224914004462 homodimer interface [polypeptide binding]; other site 224914004463 active site 224914004464 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 224914004465 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 224914004466 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 224914004467 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 224914004468 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 224914004469 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 224914004470 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 224914004471 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 224914004472 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 224914004473 S-adenosylmethionine binding site [chemical binding]; other site 224914004474 replicative DNA helicase; Provisional; Region: PRK09165 224914004475 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 224914004476 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 224914004477 Walker A motif; other site 224914004478 ATP binding site [chemical binding]; other site 224914004479 Walker B motif; other site 224914004480 DNA binding loops [nucleotide binding] 224914004481 DNA repair protein RadA; Provisional; Region: PRK11823 224914004482 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 224914004483 Walker A motif/ATP binding site; other site 224914004484 ATP binding site [chemical binding]; other site 224914004485 Walker B motif; other site 224914004486 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 224914004487 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 224914004488 Colicin V production protein; Region: Colicin_V; pfam02674 224914004489 amidophosphoribosyltransferase; Provisional; Region: PRK09123 224914004490 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 224914004491 active site 224914004492 tetramer interface [polypeptide binding]; other site 224914004493 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 224914004494 active site 224914004495 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 224914004496 classical (c) SDRs; Region: SDR_c; cd05233 224914004497 NAD(P) binding site [chemical binding]; other site 224914004498 active site 224914004499 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 224914004500 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 224914004501 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 224914004502 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 224914004503 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 224914004504 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 224914004505 Walker A/P-loop; other site 224914004506 ATP binding site [chemical binding]; other site 224914004507 Q-loop/lid; other site 224914004508 ABC transporter signature motif; other site 224914004509 Walker B; other site 224914004510 D-loop; other site 224914004511 H-loop/switch region; other site 224914004512 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 224914004513 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 224914004514 Predicted periplasmic protein [General function prediction only]; Region: COG3895 224914004515 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 224914004516 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 224914004517 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 224914004518 Methyltransferase domain; Region: Methyltransf_26; pfam13659 224914004519 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 224914004520 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 224914004521 RNA binding surface [nucleotide binding]; other site 224914004522 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 224914004523 S-adenosylmethionine binding site [chemical binding]; other site 224914004524 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 224914004525 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 224914004526 TPP-binding site; other site 224914004527 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 224914004528 PYR/PP interface [polypeptide binding]; other site 224914004529 dimer interface [polypeptide binding]; other site 224914004530 TPP binding site [chemical binding]; other site 224914004531 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 224914004532 Pirin-related protein [General function prediction only]; Region: COG1741 224914004533 Pirin; Region: Pirin; pfam02678 224914004534 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 224914004535 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3753 224914004536 Predicted membrane protein [Function unknown]; Region: COG2261 224914004537 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 224914004538 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 224914004539 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 224914004540 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 224914004541 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 224914004542 putative active site [active] 224914004543 Zn binding site [ion binding]; other site 224914004544 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 224914004545 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 224914004546 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 224914004547 dimerization interface [polypeptide binding]; other site 224914004548 active site 224914004549 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 224914004550 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 224914004551 Tetramer interface [polypeptide binding]; other site 224914004552 active site 224914004553 FMN-binding site [chemical binding]; other site 224914004554 Protein of unknown function (DUF1344); Region: DUF1344; pfam07076 224914004555 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 224914004556 putative acyl-acceptor binding pocket; other site 224914004557 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 224914004558 DNA-binding site [nucleotide binding]; DNA binding site 224914004559 RNA-binding motif; other site 224914004560 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 224914004561 catalytic core [active] 224914004562 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 224914004563 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 224914004564 NAD binding site [chemical binding]; other site 224914004565 homotetramer interface [polypeptide binding]; other site 224914004566 homodimer interface [polypeptide binding]; other site 224914004567 substrate binding site [chemical binding]; other site 224914004568 active site 224914004569 chaperone protein DnaJ; Provisional; Region: PRK14299 224914004570 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 224914004571 HSP70 interaction site [polypeptide binding]; other site 224914004572 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 224914004573 dimer interface [polypeptide binding]; other site 224914004574 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 224914004575 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 224914004576 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 224914004577 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 224914004578 UbiA prenyltransferase family; Region: UbiA; pfam01040 224914004579 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 224914004580 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 224914004581 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 224914004582 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 224914004583 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 224914004584 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 224914004585 metal binding site [ion binding]; metal-binding site 224914004586 active site 224914004587 I-site; other site 224914004588 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 224914004589 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 224914004590 active site 224914004591 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 224914004592 enoyl-CoA hydratase; Provisional; Region: PRK06688 224914004593 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 224914004594 substrate binding site [chemical binding]; other site 224914004595 oxyanion hole (OAH) forming residues; other site 224914004596 trimer interface [polypeptide binding]; other site 224914004597 Predicted transcriptional regulator [Transcription]; Region: COG3905 224914004598 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 224914004599 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 224914004600 FAD binding domain; Region: FAD_binding_4; pfam01565 224914004601 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 224914004602 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 224914004603 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 224914004604 DALR anticodon binding domain; Region: DALR_1; pfam05746 224914004605 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 224914004606 dimer interface [polypeptide binding]; other site 224914004607 motif 1; other site 224914004608 active site 224914004609 motif 2; other site 224914004610 motif 3; other site 224914004611 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 224914004612 binding surface 224914004613 TPR motif; other site 224914004614 TPR repeat; Region: TPR_11; pfam13414 224914004615 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 224914004616 binding surface 224914004617 TPR motif; other site 224914004618 TPR repeat; Region: TPR_11; pfam13414 224914004619 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 224914004620 binding surface 224914004621 TPR motif; other site 224914004622 TPR repeat; Region: TPR_11; pfam13414 224914004623 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 224914004624 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 224914004625 substrate binding pocket [chemical binding]; other site 224914004626 chain length determination region; other site 224914004627 substrate-Mg2+ binding site; other site 224914004628 catalytic residues [active] 224914004629 aspartate-rich region 1; other site 224914004630 active site lid residues [active] 224914004631 aspartate-rich region 2; other site 224914004632 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 224914004633 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 224914004634 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 224914004635 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 224914004636 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 224914004637 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 224914004638 tandem repeat interface [polypeptide binding]; other site 224914004639 oligomer interface [polypeptide binding]; other site 224914004640 active site residues [active] 224914004641 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 224914004642 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 224914004643 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 224914004644 active site 224914004645 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 224914004646 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 224914004647 FeS/SAM binding site; other site 224914004648 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 224914004649 RNA/DNA hybrid binding site [nucleotide binding]; other site 224914004650 active site 224914004651 F0F1 ATP synthase subunit B; Validated; Region: PRK09173 224914004652 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 224914004653 F0F1 ATP synthase subunit B'; Validated; Region: PRK09174 224914004654 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 224914004655 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 224914004656 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 224914004657 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 224914004658 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 224914004659 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 224914004660 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 224914004661 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 224914004662 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 224914004663 nucleotide binding site [chemical binding]; other site 224914004664 putative NEF/HSP70 interaction site [polypeptide binding]; other site 224914004665 SBD interface [polypeptide binding]; other site 224914004666 GTP-binding protein Der; Reviewed; Region: PRK00093 224914004667 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 224914004668 G1 box; other site 224914004669 GTP/Mg2+ binding site [chemical binding]; other site 224914004670 Switch I region; other site 224914004671 G2 box; other site 224914004672 Switch II region; other site 224914004673 G3 box; other site 224914004674 G4 box; other site 224914004675 G5 box; other site 224914004676 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 224914004677 G1 box; other site 224914004678 GTP/Mg2+ binding site [chemical binding]; other site 224914004679 Switch I region; other site 224914004680 G2 box; other site 224914004681 G3 box; other site 224914004682 Switch II region; other site 224914004683 G4 box; other site 224914004684 G5 box; other site 224914004685 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 224914004686 Putative catalytic domain of uncharacterized bacterial hypothetical proteins similar to insect chitin deacetylase-like proteins; Region: CE4_CDA_like_3; cd10976 224914004687 NodB motif; other site 224914004688 putative active site [active] 224914004689 putative catalytic site [active] 224914004690 microcin B17 transporter; Reviewed; Region: PRK11098 224914004691 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224914004692 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 224914004693 putative substrate translocation pore; other site 224914004694 Predicted membrane protein [Function unknown]; Region: COG4129 224914004695 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 224914004696 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 224914004697 ArsC family; Region: ArsC; pfam03960 224914004698 putative catalytic residues [active] 224914004699 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 224914004700 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 224914004701 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224914004702 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224914004703 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 224914004704 DNA binding site [nucleotide binding] 224914004705 active site 224914004706 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 224914004707 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 224914004708 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 224914004709 NAD(P) binding site [chemical binding]; other site 224914004710 catalytic residues [active] 224914004711 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 224914004712 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 224914004713 catalytic residues [active] 224914004714 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 224914004715 metal binding site 2 [ion binding]; metal-binding site 224914004716 putative DNA binding helix; other site 224914004717 metal binding site 1 [ion binding]; metal-binding site 224914004718 dimer interface [polypeptide binding]; other site 224914004719 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 224914004720 Low-spin heme binding site [chemical binding]; other site 224914004721 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 224914004722 Putative water exit pathway; other site 224914004723 Binuclear center (active site) [active] 224914004724 Putative proton exit pathway; other site 224914004725 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 224914004726 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 224914004727 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 224914004728 Cytochrome c; Region: Cytochrom_C; pfam00034 224914004729 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 224914004730 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 224914004731 4Fe-4S binding domain; Region: Fer4_5; pfam12801 224914004732 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 224914004733 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 224914004734 FixH; Region: FixH; pfam05751 224914004735 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 224914004736 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 224914004737 metal-binding site [ion binding] 224914004738 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 224914004739 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 224914004740 motif II; other site 224914004741 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 224914004742 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 224914004743 MOFRL family; Region: MOFRL; pfam05161 224914004744 guanine deaminase; Provisional; Region: PRK09228 224914004745 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 224914004746 active site 224914004747 Predicted membrane protein [Function unknown]; Region: COG3748 224914004748 Protein of unknown function (DUF989); Region: DUF989; pfam06181 224914004749 Cytochrome c; Region: Cytochrom_C; pfam00034 224914004750 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224914004751 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224914004752 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 224914004753 putative effector binding pocket; other site 224914004754 dimerization interface [polypeptide binding]; other site 224914004755 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 224914004756 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 224914004757 XdhC Rossmann domain; Region: XdhC_C; pfam13478 224914004758 Xanthine dehydrogenase, molybdopterin-binding subunit B [Nucleotide transport and metabolism]; Region: XdhB; COG4631 224914004759 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 224914004760 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 224914004761 Xanthine dehydrogenase, iron-sulfur cluster and FAD-binding subunit A [Nucleotide transport and metabolism]; Region: XdhA; COG4630 224914004762 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 224914004763 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 224914004764 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 224914004765 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 224914004766 active site 224914004767 catalytic site [active] 224914004768 tetramer interface [polypeptide binding]; other site 224914004769 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 224914004770 hypothetical protein; Provisional; Region: PRK11171 224914004771 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 224914004772 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 224914004773 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 224914004774 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 224914004775 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 224914004776 DctM-like transporters; Region: DctM; pfam06808 224914004777 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 224914004778 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 224914004779 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 224914004780 active site 224914004781 phosphorylation site [posttranslational modification] 224914004782 intermolecular recognition site; other site 224914004783 dimerization interface [polypeptide binding]; other site 224914004784 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 224914004785 DNA binding residues [nucleotide binding] 224914004786 dimerization interface [polypeptide binding]; other site 224914004787 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 224914004788 Cache domain; Region: Cache_2; pfam08269 224914004789 Histidine kinase; Region: HisKA_3; pfam07730 224914004790 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 224914004791 ATP binding site [chemical binding]; other site 224914004792 Mg2+ binding site [ion binding]; other site 224914004793 G-X-G motif; other site 224914004794 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 224914004795 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 224914004796 multidrug efflux protein; Reviewed; Region: PRK01766 224914004797 cation binding site [ion binding]; other site 224914004798 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 224914004799 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 224914004800 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 224914004801 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 224914004802 NAD(P) binding pocket [chemical binding]; other site 224914004803 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 224914004804 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 224914004805 dimer interface [polypeptide binding]; other site 224914004806 active site 224914004807 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 224914004808 catalytic residues [active] 224914004809 substrate binding site [chemical binding]; other site 224914004810 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 224914004811 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 224914004812 FAD binding pocket [chemical binding]; other site 224914004813 FAD binding motif [chemical binding]; other site 224914004814 phosphate binding motif [ion binding]; other site 224914004815 beta-alpha-beta structure motif; other site 224914004816 NAD binding pocket [chemical binding]; other site 224914004817 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 224914004818 active site 224914004819 oligomerization interface [polypeptide binding]; other site 224914004820 metal binding site [ion binding]; metal-binding site 224914004821 pantoate--beta-alanine ligase; Region: panC; TIGR00018 224914004822 Pantoate-beta-alanine ligase; Region: PanC; cd00560 224914004823 active site 224914004824 ATP-binding site [chemical binding]; other site 224914004825 pantoate-binding site; other site 224914004826 HXXH motif; other site 224914004827 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 224914004828 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 224914004829 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 224914004830 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224914004831 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224914004832 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 224914004833 putative dimerization interface [polypeptide binding]; other site 224914004834 Glycosyltransferase family 29 (sialyltransferase); Region: Glyco_transf_29; pfam00777 224914004835 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 224914004836 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 224914004837 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 224914004838 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 224914004839 putative active site [active] 224914004840 putative metal binding site [ion binding]; other site 224914004841 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 224914004842 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 224914004843 substrate-cofactor binding pocket; other site 224914004844 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914004845 catalytic residue [active] 224914004846 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 224914004847 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 224914004848 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 224914004849 Na binding site [ion binding]; other site 224914004850 PAS fold; Region: PAS_7; pfam12860 224914004851 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 224914004852 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 224914004853 dimer interface [polypeptide binding]; other site 224914004854 phosphorylation site [posttranslational modification] 224914004855 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 224914004856 ATP binding site [chemical binding]; other site 224914004857 Mg2+ binding site [ion binding]; other site 224914004858 G-X-G motif; other site 224914004859 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 224914004860 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 224914004861 active site 224914004862 phosphorylation site [posttranslational modification] 224914004863 intermolecular recognition site; other site 224914004864 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 224914004865 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 224914004866 active site 224914004867 phosphorylation site [posttranslational modification] 224914004868 intermolecular recognition site; other site 224914004869 dimerization interface [polypeptide binding]; other site 224914004870 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 224914004871 DNA binding residues [nucleotide binding] 224914004872 dimerization interface [polypeptide binding]; other site 224914004873 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 224914004874 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 224914004875 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3502 224914004876 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 224914004877 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 224914004878 quinone interaction residues [chemical binding]; other site 224914004879 active site 224914004880 catalytic residues [active] 224914004881 FMN binding site [chemical binding]; other site 224914004882 substrate binding site [chemical binding]; other site 224914004883 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 224914004884 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 224914004885 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 224914004886 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 224914004887 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 224914004888 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 224914004889 conserved cys residue [active] 224914004890 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 224914004891 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 224914004892 trimer interface [polypeptide binding]; other site 224914004893 active site 224914004894 Deoxycytidine deaminase [Nucleotide transport and metabolism]; Region: Dcd; COG0717 224914004895 trimer interface [polypeptide binding]; other site 224914004896 active site 224914004897 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 224914004898 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 224914004899 homodimer interface [polypeptide binding]; other site 224914004900 substrate-cofactor binding pocket; other site 224914004901 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914004902 catalytic residue [active] 224914004903 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 224914004904 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 224914004905 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 224914004906 dimerization interface [polypeptide binding]; other site 224914004907 domain crossover interface; other site 224914004908 redox-dependent activation switch; other site 224914004909 ornithine carbamoyltransferase; Provisional; Region: PRK00779 224914004910 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 224914004911 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 224914004912 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 224914004913 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 224914004914 inhibitor-cofactor binding pocket; inhibition site 224914004915 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914004916 catalytic residue [active] 224914004917 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5352 224914004918 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 224914004919 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 224914004920 dimer interface [polypeptide binding]; other site 224914004921 phosphorylation site [posttranslational modification] 224914004922 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 224914004923 ATP binding site [chemical binding]; other site 224914004924 Mg2+ binding site [ion binding]; other site 224914004925 G-X-G motif; other site 224914004926 Uncharacterized conserved protein [Function unknown]; Region: COG2326 224914004927 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 224914004928 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 224914004929 DXD motif; other site 224914004930 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 224914004931 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 224914004932 substrate binding pocket [chemical binding]; other site 224914004933 membrane-bound complex binding site; other site 224914004934 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 224914004935 Protein export membrane protein; Region: SecD_SecF; cl14618 224914004936 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 224914004937 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 224914004938 HlyD family secretion protein; Region: HlyD_3; pfam13437 224914004939 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 224914004940 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 224914004941 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 224914004942 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 224914004943 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 224914004944 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 224914004945 acyl-activating enzyme (AAE) consensus motif; other site 224914004946 putative AMP binding site [chemical binding]; other site 224914004947 putative active site [active] 224914004948 putative CoA binding site [chemical binding]; other site 224914004949 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 224914004950 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 224914004951 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 224914004952 motif II; other site 224914004953 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 224914004954 Predicted deacylase [General function prediction only]; Region: COG3608 224914004955 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 224914004956 active site 224914004957 Zn binding site [ion binding]; other site 224914004958 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 224914004959 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 224914004960 active site 224914004961 dimer interface [polypeptide binding]; other site 224914004962 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 224914004963 dimer interface [polypeptide binding]; other site 224914004964 active site 224914004965 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 224914004966 putative hydrophobic ligand binding site [chemical binding]; other site 224914004967 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 224914004968 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 224914004969 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 224914004970 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 224914004971 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 224914004972 homodimer interface [polypeptide binding]; other site 224914004973 active site 224914004974 FMN binding site [chemical binding]; other site 224914004975 substrate binding site [chemical binding]; other site 224914004976 4Fe-4S binding domain; Region: Fer4; cl02805 224914004977 4Fe-4S binding domain; Region: Fer4; pfam00037 224914004978 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_31; cd04690 224914004979 nudix motif; other site 224914004980 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 224914004981 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 224914004982 allantoate amidohydrolase; Reviewed; Region: PRK12893 224914004983 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 224914004984 active site 224914004985 metal binding site [ion binding]; metal-binding site 224914004986 dimer interface [polypeptide binding]; other site 224914004987 phenylhydantoinase; Validated; Region: PRK08323 224914004988 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 224914004989 tetramer interface [polypeptide binding]; other site 224914004990 active site 224914004991 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 224914004992 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 224914004993 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 224914004994 HlyD family secretion protein; Region: HlyD_3; pfam13437 224914004995 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 224914004996 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 224914004997 ATP binding site [chemical binding]; other site 224914004998 Mg2+ binding site [ion binding]; other site 224914004999 G-X-G motif; other site 224914005000 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 224914005001 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 224914005002 UreF; Region: UreF; pfam01730 224914005003 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 224914005004 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 224914005005 dimer interface [polypeptide binding]; other site 224914005006 catalytic residues [active] 224914005007 urease subunit alpha; Reviewed; Region: ureC; PRK13207 224914005008 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 224914005009 subunit interactions [polypeptide binding]; other site 224914005010 active site 224914005011 flap region; other site 224914005012 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 224914005013 gamma-beta subunit interface [polypeptide binding]; other site 224914005014 alpha-beta subunit interface [polypeptide binding]; other site 224914005015 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 224914005016 alpha-gamma subunit interface [polypeptide binding]; other site 224914005017 beta-gamma subunit interface [polypeptide binding]; other site 224914005018 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 224914005019 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 224914005020 non-specific DNA binding site [nucleotide binding]; other site 224914005021 salt bridge; other site 224914005022 sequence-specific DNA binding site [nucleotide binding]; other site 224914005023 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 224914005024 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 224914005025 catalytic residues [active] 224914005026 catalytic nucleophile [active] 224914005027 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 224914005028 DNA-binding interface [nucleotide binding]; DNA binding site 224914005029 Prophage antirepressor [Transcription]; Region: COG3617 224914005030 BRO family, N-terminal domain; Region: Bro-N; smart01040 224914005031 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 224914005032 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 224914005033 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 224914005034 Int/Topo IB signature motif; other site 224914005035 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 224914005036 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 224914005037 hinge; other site 224914005038 active site 224914005039 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 224914005040 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 224914005041 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 224914005042 NAD binding site [chemical binding]; other site 224914005043 dimerization interface [polypeptide binding]; other site 224914005044 product binding site; other site 224914005045 substrate binding site [chemical binding]; other site 224914005046 zinc binding site [ion binding]; other site 224914005047 catalytic residues [active] 224914005048 hypothetical protein; Provisional; Region: PRK02853 224914005049 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 224914005050 Low molecular weight phosphatase family; Region: LMWPc; cd00115 224914005051 active site 224914005052 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 224914005053 rRNA binding site [nucleotide binding]; other site 224914005054 predicted 30S ribosome binding site; other site 224914005055 Maf-like protein; Region: Maf; pfam02545 224914005056 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 224914005057 active site 224914005058 dimer interface [polypeptide binding]; other site 224914005059 zinc-binding protein; Provisional; Region: PRK01343 224914005060 TIR domain; Region: TIR_2; pfam13676 224914005061 GcrA cell cycle regulator; Region: GcrA; cl11564 224914005062 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 224914005063 non-specific DNA binding site [nucleotide binding]; other site 224914005064 salt bridge; other site 224914005065 sequence-specific DNA binding site [nucleotide binding]; other site 224914005066 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 224914005067 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 224914005068 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 224914005069 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 224914005070 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 224914005071 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 224914005072 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 224914005073 Toprim domain; Region: Toprim_3; pfam13362 224914005074 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 224914005075 integrase; Provisional; Region: PRK09692 224914005076 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 224914005077 active site 224914005078 Int/Topo IB signature motif; other site 224914005079 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 224914005080 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 224914005081 putative active site pocket [active] 224914005082 metal binding site [ion binding]; metal-binding site 224914005083 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 224914005084 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 224914005085 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 224914005086 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK06550 224914005087 NAD binding site [chemical binding]; other site 224914005088 homotetramer interface [polypeptide binding]; other site 224914005089 homodimer interface [polypeptide binding]; other site 224914005090 active site 224914005091 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 224914005092 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 224914005093 Uncharacterized conserved protein [Function unknown]; Region: COG3254 224914005094 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 224914005095 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 224914005096 active site pocket [active] 224914005097 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 224914005098 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 224914005099 Walker A/P-loop; other site 224914005100 ATP binding site [chemical binding]; other site 224914005101 Q-loop/lid; other site 224914005102 ABC transporter signature motif; other site 224914005103 Walker B; other site 224914005104 D-loop; other site 224914005105 H-loop/switch region; other site 224914005106 TOBE domain; Region: TOBE_2; pfam08402 224914005107 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 224914005108 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914005109 dimer interface [polypeptide binding]; other site 224914005110 conserved gate region; other site 224914005111 putative PBP binding loops; other site 224914005112 ABC-ATPase subunit interface; other site 224914005113 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914005114 dimer interface [polypeptide binding]; other site 224914005115 conserved gate region; other site 224914005116 putative PBP binding loops; other site 224914005117 ABC-ATPase subunit interface; other site 224914005118 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 224914005119 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 224914005120 Transcriptional regulator [Transcription]; Region: IclR; COG1414 224914005121 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 224914005122 putative DNA binding site [nucleotide binding]; other site 224914005123 putative Zn2+ binding site [ion binding]; other site 224914005124 Bacterial transcriptional regulator; Region: IclR; pfam01614 224914005125 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 224914005126 Amidohydrolase; Region: Amidohydro_2; pfam04909 224914005127 active site 224914005128 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 224914005129 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 224914005130 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 224914005131 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 224914005132 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 224914005133 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 224914005134 hydroxyglutarate oxidase; Provisional; Region: PRK11728 224914005135 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 224914005136 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 224914005137 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 224914005138 NAD(P) binding site [chemical binding]; other site 224914005139 Uncharacterized conserved protein [Function unknown]; Region: COG5514 224914005140 heme-binding site [chemical binding]; other site 224914005141 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 224914005142 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914005143 dimer interface [polypeptide binding]; other site 224914005144 conserved gate region; other site 224914005145 ABC-ATPase subunit interface; other site 224914005146 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 224914005147 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 224914005148 Walker A/P-loop; other site 224914005149 ATP binding site [chemical binding]; other site 224914005150 Q-loop/lid; other site 224914005151 ABC transporter signature motif; other site 224914005152 Walker B; other site 224914005153 D-loop; other site 224914005154 H-loop/switch region; other site 224914005155 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 224914005156 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914005157 dimer interface [polypeptide binding]; other site 224914005158 conserved gate region; other site 224914005159 putative PBP binding loops; other site 224914005160 ABC-ATPase subunit interface; other site 224914005161 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 224914005162 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 224914005163 DNA binding residues [nucleotide binding] 224914005164 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 224914005165 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 224914005166 metal-binding site [ion binding] 224914005167 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 224914005168 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 224914005169 metal-binding site [ion binding] 224914005170 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 224914005171 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 224914005172 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 224914005173 putative active site [active] 224914005174 heme pocket [chemical binding]; other site 224914005175 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 224914005176 putative active site [active] 224914005177 heme pocket [chemical binding]; other site 224914005178 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 224914005179 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 224914005180 metal binding site [ion binding]; metal-binding site 224914005181 active site 224914005182 I-site; other site 224914005183 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 224914005184 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 224914005185 dimer interface [polypeptide binding]; other site 224914005186 substrate binding site [chemical binding]; other site 224914005187 ATP binding site [chemical binding]; other site 224914005188 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 224914005189 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 224914005190 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 224914005191 thiS-thiF/thiG interaction site; other site 224914005192 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 224914005193 ThiS interaction site; other site 224914005194 putative active site [active] 224914005195 tetramer interface [polypeptide binding]; other site 224914005196 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 224914005197 active site 224914005198 thiamine phosphate binding site [chemical binding]; other site 224914005199 pyrophosphate binding site [ion binding]; other site 224914005200 NMT1/THI5 like; Region: NMT1; pfam09084 224914005201 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 224914005202 Putative transcription activator [Transcription]; Region: TenA; COG0819 224914005203 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 224914005204 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 224914005205 dimer interface [polypeptide binding]; other site 224914005206 conserved gate region; other site 224914005207 ABC-ATPase subunit interface; other site 224914005208 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 224914005209 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 224914005210 NAD(P) binding site [chemical binding]; other site 224914005211 catalytic residues [active] 224914005212 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 224914005213 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 224914005214 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224914005215 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224914005216 ATP binding site [chemical binding]; other site 224914005217 ABC transporter; Region: ABC_tran; pfam00005 224914005218 Q-loop/lid; other site 224914005219 ABC transporter signature motif; other site 224914005220 Walker B; other site 224914005221 D-loop; other site 224914005222 H-loop/switch region; other site 224914005223 Transcriptional regulators [Transcription]; Region: PurR; COG1609 224914005224 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 224914005225 DNA binding site [nucleotide binding] 224914005226 domain linker motif; other site 224914005227 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 224914005228 putative dimerization interface [polypeptide binding]; other site 224914005229 putative ligand binding site [chemical binding]; other site 224914005230 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3564 224914005231 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 224914005232 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 224914005233 NAD binding site [chemical binding]; other site 224914005234 substrate binding site [chemical binding]; other site 224914005235 catalytic Zn binding site [ion binding]; other site 224914005236 tetramer interface [polypeptide binding]; other site 224914005237 structural Zn binding site [ion binding]; other site 224914005238 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 224914005239 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 224914005240 NAD(P) binding site [chemical binding]; other site 224914005241 catalytic residues [active] 224914005242 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 224914005243 GAF domain; Region: GAF; pfam01590 224914005244 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 224914005245 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 224914005246 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 224914005247 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 224914005248 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 224914005249 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 224914005250 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 224914005251 active site 224914005252 dimerization interface [polypeptide binding]; other site 224914005253 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 224914005254 DNA binding residues [nucleotide binding] 224914005255 dimerization interface [polypeptide binding]; other site 224914005256 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 224914005257 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 224914005258 ligand binding site [chemical binding]; other site 224914005259 flexible hinge region; other site 224914005260 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 224914005261 putative switch regulator; other site 224914005262 non-specific DNA interactions [nucleotide binding]; other site 224914005263 DNA binding site [nucleotide binding] 224914005264 sequence specific DNA binding site [nucleotide binding]; other site 224914005265 putative cAMP binding site [chemical binding]; other site 224914005266 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 224914005267 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 224914005268 active site 224914005269 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 224914005270 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 224914005271 CysD dimerization site [polypeptide binding]; other site 224914005272 G1 box; other site 224914005273 putative GEF interaction site [polypeptide binding]; other site 224914005274 GTP/Mg2+ binding site [chemical binding]; other site 224914005275 Switch I region; other site 224914005276 G2 box; other site 224914005277 G3 box; other site 224914005278 Switch II region; other site 224914005279 G4 box; other site 224914005280 G5 box; other site 224914005281 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 224914005282 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 224914005283 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 224914005284 ligand-binding site [chemical binding]; other site 224914005285 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 224914005286 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 224914005287 Active Sites [active] 224914005288 aminotransferase; Provisional; Region: PRK06105 224914005289 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 224914005290 inhibitor-cofactor binding pocket; inhibition site 224914005291 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914005292 catalytic residue [active] 224914005293 Autoinducer binding domain; Region: Autoind_bind; pfam03472 224914005294 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 224914005295 DNA binding residues [nucleotide binding] 224914005296 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 224914005297 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 224914005298 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 224914005299 substrate binding pocket [chemical binding]; other site 224914005300 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 224914005301 B12 binding site [chemical binding]; other site 224914005302 cobalt ligand [ion binding]; other site 224914005303 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 224914005304 BA14K-like protein; Region: BA14K; pfam07886 224914005305 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 224914005306 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 224914005307 active site 224914005308 DNA binding site [nucleotide binding] 224914005309 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 224914005310 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 224914005311 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 224914005312 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 224914005313 Active Sites [active] 224914005314 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 224914005315 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 224914005316 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 224914005317 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 224914005318 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 224914005319 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 224914005320 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 224914005321 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 224914005322 active site 224914005323 SAM binding site [chemical binding]; other site 224914005324 homodimer interface [polypeptide binding]; other site 224914005325 hypothetical protein; Reviewed; Region: PRK12497 224914005326 Predicted methyltransferases [General function prediction only]; Region: COG0313 224914005327 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 224914005328 putative SAM binding site [chemical binding]; other site 224914005329 putative homodimer interface [polypeptide binding]; other site 224914005330 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 224914005331 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 224914005332 FeS/SAM binding site; other site 224914005333 HemN C-terminal domain; Region: HemN_C; pfam06969 224914005334 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 224914005335 active site 224914005336 dimerization interface [polypeptide binding]; other site 224914005337 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 224914005338 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 224914005339 ribonuclease PH; Reviewed; Region: rph; PRK00173 224914005340 Ribonuclease PH; Region: RNase_PH_bact; cd11362 224914005341 hexamer interface [polypeptide binding]; other site 224914005342 active site 224914005343 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 224914005344 heat shock protein GrpE; Provisional; Region: PRK14141 224914005345 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 224914005346 dimer interface [polypeptide binding]; other site 224914005347 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 224914005348 Predicted membrane protein [Function unknown]; Region: COG2860 224914005349 UPF0126 domain; Region: UPF0126; pfam03458 224914005350 UPF0126 domain; Region: UPF0126; pfam03458 224914005351 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 224914005352 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 224914005353 substrate binding site [chemical binding]; other site 224914005354 ATP binding site [chemical binding]; other site 224914005355 CysZ-like protein; Reviewed; Region: PRK12768 224914005356 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 224914005357 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 224914005358 minor groove reading motif; other site 224914005359 helix-hairpin-helix signature motif; other site 224914005360 substrate binding pocket [chemical binding]; other site 224914005361 active site 224914005362 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 224914005363 Integral membrane protein [Function unknown]; Region: COG5488 224914005364 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 224914005365 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 224914005366 putative dimer interface [polypeptide binding]; other site 224914005367 Uncharacterized small protein [Function unknown]; Region: COG5568 224914005368 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 224914005369 active site 224914005370 phosphorylation site [posttranslational modification] 224914005371 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 224914005372 30S subunit binding site; other site 224914005373 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 224914005374 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 224914005375 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 224914005376 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 224914005377 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 224914005378 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 224914005379 Walker A/P-loop; other site 224914005380 ATP binding site [chemical binding]; other site 224914005381 Q-loop/lid; other site 224914005382 ABC transporter signature motif; other site 224914005383 Walker B; other site 224914005384 D-loop; other site 224914005385 H-loop/switch region; other site 224914005386 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 224914005387 OstA-like protein; Region: OstA; pfam03968 224914005388 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 224914005389 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 224914005390 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 224914005391 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 224914005392 tandem repeat interface [polypeptide binding]; other site 224914005393 oligomer interface [polypeptide binding]; other site 224914005394 active site residues [active] 224914005395 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 224914005396 IHF dimer interface [polypeptide binding]; other site 224914005397 IHF - DNA interface [nucleotide binding]; other site 224914005398 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 224914005399 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 224914005400 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 224914005401 S-adenosylmethionine binding site [chemical binding]; other site 224914005402 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 224914005403 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 224914005404 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 224914005405 lipoprotein signal peptidase; Provisional; Region: PRK14795 224914005406 lipoprotein signal peptidase; Provisional; Region: PRK14787 224914005407 Putative hemolysin [General function prediction only]; Region: COG3176 224914005408 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 224914005409 MutS domain I; Region: MutS_I; pfam01624 224914005410 MutS domain II; Region: MutS_II; pfam05188 224914005411 MutS domain III; Region: MutS_III; pfam05192 224914005412 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 224914005413 Walker A/P-loop; other site 224914005414 ATP binding site [chemical binding]; other site 224914005415 Q-loop/lid; other site 224914005416 ABC transporter signature motif; other site 224914005417 Walker B; other site 224914005418 D-loop; other site 224914005419 H-loop/switch region; other site 224914005420 Malic enzyme, N-terminal domain; Region: malic; pfam00390 224914005421 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 224914005422 putative NAD(P) binding site [chemical binding]; other site 224914005423 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 224914005424 PII uridylyl-transferase; Provisional; Region: PRK05092 224914005425 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 224914005426 metal binding triad; other site 224914005427 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 224914005428 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 224914005429 Zn2+ binding site [ion binding]; other site 224914005430 Mg2+ binding site [ion binding]; other site 224914005431 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 224914005432 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 224914005433 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 224914005434 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 224914005435 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 224914005436 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 224914005437 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 224914005438 active site 224914005439 HIGH motif; other site 224914005440 dimer interface [polypeptide binding]; other site 224914005441 KMSKS motif; other site 224914005442 Universal stress protein family; Region: Usp; pfam00582 224914005443 Ligand Binding Site [chemical binding]; other site 224914005444 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 224914005445 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 224914005446 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 224914005447 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 224914005448 Protein of unknown function (DUF1052); Region: DUF1052; pfam06319 224914005449 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 224914005450 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 224914005451 active site 224914005452 phosphorylation site [posttranslational modification] 224914005453 intermolecular recognition site; other site 224914005454 dimerization interface [polypeptide binding]; other site 224914005455 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 224914005456 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 224914005457 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 224914005458 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 224914005459 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 224914005460 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 224914005461 ATP binding site [chemical binding]; other site 224914005462 Mg2+ binding site [ion binding]; other site 224914005463 G-X-G motif; other site 224914005464 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 224914005465 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 224914005466 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 224914005467 ATP binding site [chemical binding]; other site 224914005468 putative Mg++ binding site [ion binding]; other site 224914005469 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 224914005470 nucleotide binding region [chemical binding]; other site 224914005471 ATP-binding site [chemical binding]; other site 224914005472 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 224914005473 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 224914005474 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 224914005475 substrate binding site [chemical binding]; other site 224914005476 catalytic Zn binding site [ion binding]; other site 224914005477 NAD binding site [chemical binding]; other site 224914005478 structural Zn binding site [ion binding]; other site 224914005479 dimer interface [polypeptide binding]; other site 224914005480 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224914005481 Coenzyme A binding pocket [chemical binding]; other site 224914005482 Predicted membrane protein [Function unknown]; Region: COG4291 224914005483 S-formylglutathione hydrolase; Region: PLN02442 224914005484 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 224914005485 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 224914005486 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 224914005487 Mg2+ binding site [ion binding]; other site 224914005488 G-X-G motif; other site 224914005489 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 224914005490 anchoring element; other site 224914005491 dimer interface [polypeptide binding]; other site 224914005492 ATP binding site [chemical binding]; other site 224914005493 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 224914005494 active site 224914005495 putative metal-binding site [ion binding]; other site 224914005496 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 224914005497 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 224914005498 DEAD-like helicases superfamily; Region: DEXDc; smart00487 224914005499 ATP binding site [chemical binding]; other site 224914005500 Mg++ binding site [ion binding]; other site 224914005501 motif III; other site 224914005502 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 224914005503 nucleotide binding region [chemical binding]; other site 224914005504 ATP-binding site [chemical binding]; other site 224914005505 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 224914005506 RNA binding site [nucleotide binding]; other site 224914005507 DNA polymerase I; Region: pola; TIGR00593 224914005508 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 224914005509 active site 224914005510 metal binding site 1 [ion binding]; metal-binding site 224914005511 putative 5' ssDNA interaction site; other site 224914005512 metal binding site 3; metal-binding site 224914005513 metal binding site 2 [ion binding]; metal-binding site 224914005514 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 224914005515 putative DNA binding site [nucleotide binding]; other site 224914005516 putative metal binding site [ion binding]; other site 224914005517 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 224914005518 active site 224914005519 catalytic site [active] 224914005520 substrate binding site [chemical binding]; other site 224914005521 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 224914005522 active site 224914005523 DNA binding site [nucleotide binding] 224914005524 catalytic site [active] 224914005525 hypothetical protein; Validated; Region: PRK09104 224914005526 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 224914005527 metal binding site [ion binding]; metal-binding site 224914005528 putative dimer interface [polypeptide binding]; other site 224914005529 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 224914005530 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 224914005531 catalytic site [active] 224914005532 putative active site [active] 224914005533 putative substrate binding site [chemical binding]; other site 224914005534 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 224914005535 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 224914005536 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 224914005537 Transglycosylase; Region: Transgly; pfam00912 224914005538 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 224914005539 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 224914005540 classical (c) SDRs; Region: SDR_c; cd05233 224914005541 NAD(P) binding site [chemical binding]; other site 224914005542 active site 224914005543 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 224914005544 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 224914005545 putative substrate binding site [chemical binding]; other site 224914005546 putative ATP binding site [chemical binding]; other site 224914005547 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 224914005548 S-adenosylmethionine binding site [chemical binding]; other site 224914005549 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 224914005550 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 224914005551 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 224914005552 active site 224914005553 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 224914005554 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 224914005555 Putative glucoamylase; Region: Glycoamylase; pfam10091 224914005556 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 224914005557 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 224914005558 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 224914005559 Protein of unknown function, DUF608; Region: DUF608; pfam04685 224914005560 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 224914005561 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 224914005562 Walker A/P-loop; other site 224914005563 ATP binding site [chemical binding]; other site 224914005564 Q-loop/lid; other site 224914005565 ABC transporter signature motif; other site 224914005566 Walker B; other site 224914005567 D-loop; other site 224914005568 H-loop/switch region; other site 224914005569 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914005570 dimer interface [polypeptide binding]; other site 224914005571 conserved gate region; other site 224914005572 putative PBP binding loops; other site 224914005573 ABC-ATPase subunit interface; other site 224914005574 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 224914005575 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914005576 dimer interface [polypeptide binding]; other site 224914005577 conserved gate region; other site 224914005578 putative PBP binding loops; other site 224914005579 ABC-ATPase subunit interface; other site 224914005580 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 224914005581 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 224914005582 Uncharacterized conserved protein [Function unknown]; Region: COG1434 224914005583 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 224914005584 putative active site [active] 224914005585 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 224914005586 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 224914005587 AsnC family; Region: AsnC_trans_reg; pfam01037 224914005588 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 224914005589 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 224914005590 active site 224914005591 phosphorylation site [posttranslational modification] 224914005592 intermolecular recognition site; other site 224914005593 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 224914005594 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 224914005595 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 224914005596 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 224914005597 catalytic residues [active] 224914005598 central insert; other site 224914005599 heme exporter protein CcmD; Region: cytochro_ccmD; TIGR03141 224914005600 heme exporter protein CcmC; Region: ccmC; TIGR01191 224914005601 ABC-type transport system involved in cytochrome c biogenesis, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CcmB; COG2386 224914005602 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 224914005603 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 224914005604 Walker A/P-loop; other site 224914005605 ATP binding site [chemical binding]; other site 224914005606 Q-loop/lid; other site 224914005607 ABC transporter signature motif; other site 224914005608 Walker B; other site 224914005609 D-loop; other site 224914005610 H-loop/switch region; other site 224914005611 aconitate hydratase; Validated; Region: PRK09277 224914005612 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 224914005613 substrate binding site [chemical binding]; other site 224914005614 ligand binding site [chemical binding]; other site 224914005615 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 224914005616 substrate binding site [chemical binding]; other site 224914005617 Uncharacterized secreted protein [Function unknown]; Region: COG5429 224914005618 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 224914005619 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 224914005620 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224914005621 Coenzyme A binding pocket [chemical binding]; other site 224914005622 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 224914005623 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 224914005624 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 224914005625 FtsX-like permease family; Region: FtsX; pfam02687 224914005626 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 224914005627 active site 224914005628 catalytic triad [active] 224914005629 oxyanion hole [active] 224914005630 switch loop; other site 224914005631 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 224914005632 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 224914005633 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 224914005634 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 224914005635 Low molecular weight phosphatase family; Region: LMWPc; cd00115 224914005636 active site 224914005637 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 224914005638 aromatic arch; other site 224914005639 DCoH dimer interaction site [polypeptide binding]; other site 224914005640 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 224914005641 DCoH tetramer interaction site [polypeptide binding]; other site 224914005642 substrate binding site [chemical binding]; other site 224914005643 Uncharacterized conserved protein [Function unknown]; Region: COG3339 224914005644 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 224914005645 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 224914005646 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 224914005647 FeS/SAM binding site; other site 224914005648 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 224914005649 argininosuccinate synthase; Provisional; Region: PRK13820 224914005650 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 224914005651 ANP binding site [chemical binding]; other site 224914005652 Substrate Binding Site II [chemical binding]; other site 224914005653 Substrate Binding Site I [chemical binding]; other site 224914005654 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 224914005655 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 224914005656 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 224914005657 trimer interface [polypeptide binding]; other site 224914005658 Haemagglutinin; Region: HIM; pfam05662 224914005659 Haemagglutinin; Region: HIM; pfam05662 224914005660 YadA-like C-terminal region; Region: YadA; pfam03895 224914005661 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 224914005662 Haemagglutinin; Region: HIM; pfam05662 224914005663 Haemagglutinin; Region: HIM; pfam05662 224914005664 Uncharacterized conserved protein [Function unknown]; Region: COG4544 224914005665 DNA Polymerase Y-family; Region: PolY_like; cd03468 224914005666 active site 224914005667 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 224914005668 DNA binding site [nucleotide binding] 224914005669 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 224914005670 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 224914005671 putative active site [active] 224914005672 putative PHP Thumb interface [polypeptide binding]; other site 224914005673 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 224914005674 generic binding surface II; other site 224914005675 generic binding surface I; other site 224914005676 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 224914005677 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 224914005678 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 224914005679 N-acetyl-D-glucosamine binding site [chemical binding]; other site 224914005680 catalytic residue [active] 224914005681 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 224914005682 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 224914005683 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 224914005684 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 224914005685 active site 224914005686 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 224914005687 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 224914005688 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224914005689 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224914005690 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 224914005691 putative effector binding pocket; other site 224914005692 putative dimerization interface [polypeptide binding]; other site 224914005693 phosphoglucomutase; Region: PLN02307 224914005694 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction; Region: PGM1; cd03085 224914005695 substrate binding site [chemical binding]; other site 224914005696 dimer interface [polypeptide binding]; other site 224914005697 active site 224914005698 metal binding site [ion binding]; metal-binding site 224914005699 Domain of unknown function DUF59; Region: DUF59; pfam01883 224914005700 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 224914005701 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 224914005702 Walker A motif; other site 224914005703 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 224914005704 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 224914005705 dimer interface [polypeptide binding]; other site 224914005706 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 224914005707 active site 224914005708 metal binding site [ion binding]; metal-binding site 224914005709 glutathione binding site [chemical binding]; other site 224914005710 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 224914005711 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 224914005712 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 224914005713 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 224914005714 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 224914005715 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 224914005716 Family of unknown function (DUF490); Region: DUF490; pfam04357 224914005717 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 224914005718 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 224914005719 Surface antigen; Region: Bac_surface_Ag; pfam01103 224914005720 Bacterial SH3 domain; Region: SH3_3; cl17532 224914005721 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 224914005722 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 224914005723 Subunit I/III interface [polypeptide binding]; other site 224914005724 Subunit III/IV interface [polypeptide binding]; other site 224914005725 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 224914005726 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 224914005727 D-pathway; other site 224914005728 Putative ubiquinol binding site [chemical binding]; other site 224914005729 Low-spin heme (heme b) binding site [chemical binding]; other site 224914005730 Putative water exit pathway; other site 224914005731 Binuclear center (heme o3/CuB) [ion binding]; other site 224914005732 K-pathway; other site 224914005733 Putative proton exit pathway; other site 224914005734 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 224914005735 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 224914005736 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 224914005737 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 224914005738 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 224914005739 putative MPT binding site; other site 224914005740 Cytochrome c2 [Energy production and conversion]; Region: COG3474 224914005741 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 224914005742 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 224914005743 Ligand binding site; other site 224914005744 oligomer interface; other site 224914005745 prephenate dehydratase; Provisional; Region: PRK11899 224914005746 Prephenate dehydratase; Region: PDT; pfam00800 224914005747 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 224914005748 putative L-Phe binding site [chemical binding]; other site 224914005749 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 224914005750 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 224914005751 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 224914005752 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 224914005753 putative NADH binding site [chemical binding]; other site 224914005754 putative active site [active] 224914005755 nudix motif; other site 224914005756 putative metal binding site [ion binding]; other site 224914005757 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 224914005758 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 224914005759 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 224914005760 Walker A motif; other site 224914005761 ATP binding site [chemical binding]; other site 224914005762 Walker B motif; other site 224914005763 arginine finger; other site 224914005764 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 224914005765 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 224914005766 hypothetical protein; Validated; Region: PRK00153 224914005767 recombination protein RecR; Reviewed; Region: recR; PRK00076 224914005768 RecR protein; Region: RecR; pfam02132 224914005769 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 224914005770 putative active site [active] 224914005771 putative metal-binding site [ion binding]; other site 224914005772 tetramer interface [polypeptide binding]; other site 224914005773 lytic murein transglycosylase; Region: MltB_2; TIGR02283 224914005774 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 224914005775 N-acetyl-D-glucosamine binding site [chemical binding]; other site 224914005776 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 224914005777 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224914005778 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 224914005779 putative dimerization interface [polypeptide binding]; other site 224914005780 Predicted membrane protein [Function unknown]; Region: COG2855 224914005781 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 224914005782 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 224914005783 RNA binding site [nucleotide binding]; other site 224914005784 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 224914005785 RNA binding site [nucleotide binding]; other site 224914005786 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 224914005787 RNA binding site [nucleotide binding]; other site 224914005788 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 224914005789 RNA binding site [nucleotide binding]; other site 224914005790 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 224914005791 RNA binding site [nucleotide binding]; other site 224914005792 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 224914005793 RNA binding site [nucleotide binding]; other site 224914005794 cytidylate kinase; Provisional; Region: cmk; PRK00023 224914005795 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 224914005796 CMP-binding site; other site 224914005797 The sites determining sugar specificity; other site 224914005798 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 224914005799 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 224914005800 hinge; other site 224914005801 active site 224914005802 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 224914005803 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 224914005804 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 224914005805 CHRD domain; Region: CHRD; pfam07452 224914005806 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 224914005807 acyl-activating enzyme (AAE) consensus motif; other site 224914005808 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 224914005809 active site 224914005810 CoA binding site [chemical binding]; other site 224914005811 AMP binding site [chemical binding]; other site 224914005812 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 224914005813 isovaleryl-CoA dehydrogenase; Region: PLN02519 224914005814 substrate binding site [chemical binding]; other site 224914005815 FAD binding site [chemical binding]; other site 224914005816 catalytic base [active] 224914005817 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 224914005818 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 224914005819 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 224914005820 ATP-grasp domain; Region: ATP-grasp_4; cl17255 224914005821 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 224914005822 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 224914005823 carboxyltransferase (CT) interaction site; other site 224914005824 biotinylation site [posttranslational modification]; other site 224914005825 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 224914005826 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 224914005827 active site 224914005828 catalytic residues [active] 224914005829 metal binding site [ion binding]; metal-binding site 224914005830 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 224914005831 substrate binding site [chemical binding]; other site 224914005832 oxyanion hole (OAH) forming residues; other site 224914005833 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 224914005834 trimer interface [polypeptide binding]; other site 224914005835 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 224914005836 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 224914005837 dimerization interface [polypeptide binding]; other site 224914005838 ligand binding site [chemical binding]; other site 224914005839 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 224914005840 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 224914005841 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 224914005842 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 224914005843 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 224914005844 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914005845 dimer interface [polypeptide binding]; other site 224914005846 conserved gate region; other site 224914005847 putative PBP binding loops; other site 224914005848 ABC-ATPase subunit interface; other site 224914005849 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 224914005850 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914005851 dimer interface [polypeptide binding]; other site 224914005852 conserved gate region; other site 224914005853 putative PBP binding loops; other site 224914005854 ABC-ATPase subunit interface; other site 224914005855 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 224914005856 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 224914005857 Walker A/P-loop; other site 224914005858 ATP binding site [chemical binding]; other site 224914005859 Q-loop/lid; other site 224914005860 ABC transporter signature motif; other site 224914005861 Walker B; other site 224914005862 D-loop; other site 224914005863 H-loop/switch region; other site 224914005864 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 224914005865 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 224914005866 Walker A/P-loop; other site 224914005867 ATP binding site [chemical binding]; other site 224914005868 Q-loop/lid; other site 224914005869 ABC transporter signature motif; other site 224914005870 Walker B; other site 224914005871 D-loop; other site 224914005872 H-loop/switch region; other site 224914005873 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 224914005874 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 224914005875 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 224914005876 putative ligand binding site [chemical binding]; other site 224914005877 NAD binding site [chemical binding]; other site 224914005878 dimerization interface [polypeptide binding]; other site 224914005879 catalytic site [active] 224914005880 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 224914005881 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 224914005882 ATP binding site [chemical binding]; other site 224914005883 substrate interface [chemical binding]; other site 224914005884 recombination protein F; Reviewed; Region: recF; PRK00064 224914005885 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 224914005886 Walker A/P-loop; other site 224914005887 ATP binding site [chemical binding]; other site 224914005888 Q-loop/lid; other site 224914005889 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224914005890 ABC transporter signature motif; other site 224914005891 Walker B; other site 224914005892 D-loop; other site 224914005893 H-loop/switch region; other site 224914005894 DNA polymerase III subunit beta; Validated; Region: PRK05643 224914005895 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 224914005896 putative DNA binding surface [nucleotide binding]; other site 224914005897 dimer interface [polypeptide binding]; other site 224914005898 beta-clamp/clamp loader binding surface; other site 224914005899 beta-clamp/translesion DNA polymerase binding surface; other site 224914005900 DnaA N-terminal domain; Region: DnaA_N; pfam11638 224914005901 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 224914005902 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 224914005903 Walker A motif; other site 224914005904 ATP binding site [chemical binding]; other site 224914005905 Walker B motif; other site 224914005906 arginine finger; other site 224914005907 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 224914005908 DnaA box-binding interface [nucleotide binding]; other site 224914005909 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 224914005910 enoyl-CoA hydratase; Provisional; Region: PRK05862 224914005911 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 224914005912 substrate binding site [chemical binding]; other site 224914005913 oxyanion hole (OAH) forming residues; other site 224914005914 trimer interface [polypeptide binding]; other site 224914005915 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 224914005916 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 224914005917 DNA binding site [nucleotide binding] 224914005918 catalytic residue [active] 224914005919 H2TH interface [polypeptide binding]; other site 224914005920 putative catalytic residues [active] 224914005921 turnover-facilitating residue; other site 224914005922 intercalation triad [nucleotide binding]; other site 224914005923 8OG recognition residue [nucleotide binding]; other site 224914005924 putative reading head residues; other site 224914005925 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 224914005926 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 224914005927 multifunctional aminopeptidase A; Provisional; Region: PRK00913 224914005928 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 224914005929 interface (dimer of trimers) [polypeptide binding]; other site 224914005930 Substrate-binding/catalytic site; other site 224914005931 Zn-binding sites [ion binding]; other site 224914005932 Transcriptional regulators [Transcription]; Region: MarR; COG1846 224914005933 MarR family; Region: MarR; pfam01047 224914005934 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 224914005935 NlpC/P60 family; Region: NLPC_P60; cl17555 224914005936 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 224914005937 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 224914005938 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 224914005939 dimerization interface [polypeptide binding]; other site 224914005940 ligand binding site [chemical binding]; other site 224914005941 NADP binding site [chemical binding]; other site 224914005942 catalytic site [active] 224914005943 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 224914005944 Bacterial SH3 domain; Region: SH3_4; pfam06347 224914005945 Bacterial SH3 domain; Region: SH3_4; pfam06347 224914005946 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 224914005947 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 224914005948 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 224914005949 metal binding site 2 [ion binding]; metal-binding site 224914005950 putative DNA binding helix; other site 224914005951 metal binding site 1 [ion binding]; metal-binding site 224914005952 dimer interface [polypeptide binding]; other site 224914005953 structural Zn2+ binding site [ion binding]; other site 224914005954 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 224914005955 active site 1 [active] 224914005956 dimer interface [polypeptide binding]; other site 224914005957 active site 2 [active] 224914005958 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 224914005959 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 224914005960 dimer interface [polypeptide binding]; other site 224914005961 active site 224914005962 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 224914005963 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 224914005964 NAD binding site [chemical binding]; other site 224914005965 homotetramer interface [polypeptide binding]; other site 224914005966 homodimer interface [polypeptide binding]; other site 224914005967 substrate binding site [chemical binding]; other site 224914005968 active site 224914005969 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 224914005970 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 224914005971 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 224914005972 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 224914005973 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 224914005974 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 224914005975 RNase E interface [polypeptide binding]; other site 224914005976 trimer interface [polypeptide binding]; other site 224914005977 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 224914005978 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 224914005979 RNase E interface [polypeptide binding]; other site 224914005980 trimer interface [polypeptide binding]; other site 224914005981 active site 224914005982 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 224914005983 putative nucleic acid binding region [nucleotide binding]; other site 224914005984 G-X-X-G motif; other site 224914005985 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 224914005986 RNA binding site [nucleotide binding]; other site 224914005987 domain interface; other site 224914005988 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 224914005989 16S/18S rRNA binding site [nucleotide binding]; other site 224914005990 S13e-L30e interaction site [polypeptide binding]; other site 224914005991 25S rRNA binding site [nucleotide binding]; other site 224914005992 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 224914005993 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 224914005994 RNA binding site [nucleotide binding]; other site 224914005995 active site 224914005996 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 224914005997 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 224914005998 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 224914005999 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 224914006000 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 224914006001 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 224914006002 G1 box; other site 224914006003 putative GEF interaction site [polypeptide binding]; other site 224914006004 GTP/Mg2+ binding site [chemical binding]; other site 224914006005 Switch I region; other site 224914006006 G2 box; other site 224914006007 G3 box; other site 224914006008 Switch II region; other site 224914006009 G4 box; other site 224914006010 G5 box; other site 224914006011 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 224914006012 Translation-initiation factor 2; Region: IF-2; pfam11987 224914006013 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 224914006014 hypothetical protein; Provisional; Region: PRK09190 224914006015 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 224914006016 putative RNA binding cleft [nucleotide binding]; other site 224914006017 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 224914006018 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 224914006019 NusA N-terminal domain; Region: NusA_N; pfam08529 224914006020 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 224914006021 RNA binding site [nucleotide binding]; other site 224914006022 homodimer interface [polypeptide binding]; other site 224914006023 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 224914006024 G-X-X-G motif; other site 224914006025 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 224914006026 G-X-X-G motif; other site 224914006027 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 224914006028 ribosome maturation protein RimP; Reviewed; Region: PRK00092 224914006029 Sm and related proteins; Region: Sm_like; cl00259 224914006030 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 224914006031 putative oligomer interface [polypeptide binding]; other site 224914006032 putative RNA binding site [nucleotide binding]; other site 224914006033 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]; Region: COG0220 224914006034 S-adenosylmethionine synthetase; Validated; Region: PRK05250 224914006035 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 224914006036 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 224914006037 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 224914006038 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 224914006039 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 224914006040 non-specific DNA binding site [nucleotide binding]; other site 224914006041 salt bridge; other site 224914006042 sequence-specific DNA binding site [nucleotide binding]; other site 224914006043 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 224914006044 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 224914006045 putative active site [active] 224914006046 catalytic triad [active] 224914006047 putative dimer interface [polypeptide binding]; other site 224914006048 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 224914006049 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 224914006050 Transporter associated domain; Region: CorC_HlyC; smart01091 224914006051 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 224914006052 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 224914006053 PhoH-like protein; Region: PhoH; pfam02562 224914006054 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 224914006055 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 224914006056 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 224914006057 FeS/SAM binding site; other site 224914006058 TRAM domain; Region: TRAM; cl01282 224914006059 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 224914006060 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 224914006061 putative acyl-acceptor binding pocket; other site 224914006062 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 224914006063 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 224914006064 Coenzyme A binding pocket [chemical binding]; other site 224914006065 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 224914006066 Glycoprotease family; Region: Peptidase_M22; pfam00814 224914006067 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 224914006068 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 224914006069 dimerization interface [polypeptide binding]; other site 224914006070 DPS ferroxidase diiron center [ion binding]; other site 224914006071 ion pore; other site 224914006072 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 224914006073 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 224914006074 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 224914006075 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 224914006076 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 224914006077 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 224914006078 active site 224914006079 phosphorylation site [posttranslational modification] 224914006080 intermolecular recognition site; other site 224914006081 dimerization interface [polypeptide binding]; other site 224914006082 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 224914006083 DNA binding site [nucleotide binding] 224914006084 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 224914006085 PhoU domain; Region: PhoU; pfam01895 224914006086 PhoU domain; Region: PhoU; pfam01895 224914006087 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 224914006088 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 224914006089 Walker A/P-loop; other site 224914006090 ATP binding site [chemical binding]; other site 224914006091 Q-loop/lid; other site 224914006092 ABC transporter signature motif; other site 224914006093 Walker B; other site 224914006094 D-loop; other site 224914006095 H-loop/switch region; other site 224914006096 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 224914006097 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 224914006098 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914006099 dimer interface [polypeptide binding]; other site 224914006100 conserved gate region; other site 224914006101 putative PBP binding loops; other site 224914006102 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914006103 ABC-ATPase subunit interface; other site 224914006104 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 224914006105 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 224914006106 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914006107 dimer interface [polypeptide binding]; other site 224914006108 conserved gate region; other site 224914006109 putative PBP binding loops; other site 224914006110 ABC-ATPase subunit interface; other site 224914006111 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 224914006112 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 224914006113 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 224914006114 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 224914006115 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 224914006116 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 224914006117 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 224914006118 Walker A motif; other site 224914006119 ATP binding site [chemical binding]; other site 224914006120 Walker B motif; other site 224914006121 arginine finger; other site 224914006122 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 224914006123 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 224914006124 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 224914006125 glutathione synthetase; Provisional; Region: PRK05246 224914006126 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 224914006127 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 224914006128 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 224914006129 Uncharacterized conserved protein [Function unknown]; Region: COG5470 224914006130 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 224914006131 active site 224914006132 dimer interface [polypeptide binding]; other site 224914006133 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 224914006134 S-adenosylmethionine binding site [chemical binding]; other site 224914006135 chaperone protein DnaJ; Provisional; Region: PRK10767 224914006136 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 224914006137 HSP70 interaction site [polypeptide binding]; other site 224914006138 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 224914006139 substrate binding site [polypeptide binding]; other site 224914006140 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 224914006141 Zn binding sites [ion binding]; other site 224914006142 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 224914006143 dimer interface [polypeptide binding]; other site 224914006144 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 224914006145 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 224914006146 nucleotide binding site [chemical binding]; other site 224914006147 NEF interaction site [polypeptide binding]; other site 224914006148 SBD interface [polypeptide binding]; other site 224914006149 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 224914006150 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 224914006151 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 224914006152 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 224914006153 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 224914006154 putative tRNA-binding site [nucleotide binding]; other site 224914006155 B3/4 domain; Region: B3_4; pfam03483 224914006156 tRNA synthetase B5 domain; Region: B5; smart00874 224914006157 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 224914006158 dimer interface [polypeptide binding]; other site 224914006159 motif 1; other site 224914006160 motif 3; other site 224914006161 motif 2; other site 224914006162 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 224914006163 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 224914006164 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 224914006165 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 224914006166 dimer interface [polypeptide binding]; other site 224914006167 motif 1; other site 224914006168 active site 224914006169 motif 2; other site 224914006170 motif 3; other site 224914006171 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 224914006172 23S rRNA binding site [nucleotide binding]; other site 224914006173 L21 binding site [polypeptide binding]; other site 224914006174 L13 binding site [polypeptide binding]; other site 224914006175 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 224914006176 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 224914006177 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 224914006178 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 224914006179 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 224914006180 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 224914006181 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 224914006182 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 224914006183 benzoate transporter; Region: benE; TIGR00843 224914006184 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 224914006185 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 224914006186 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 224914006187 Uncharacterized conserved protein [Function unknown]; Region: COG1434 224914006188 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 224914006189 putative active site [active] 224914006190 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 224914006191 active site 224914006192 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 224914006193 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 224914006194 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914006195 catalytic residue [active] 224914006196 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 224914006197 substrate binding site [chemical binding]; other site 224914006198 active site 224914006199 catalytic residues [active] 224914006200 heterodimer interface [polypeptide binding]; other site 224914006201 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 224914006202 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 224914006203 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 224914006204 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 224914006205 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 224914006206 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 224914006207 catalytic residues [active] 224914006208 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 224914006209 Part of AAA domain; Region: AAA_19; pfam13245 224914006210 Family description; Region: UvrD_C_2; pfam13538 224914006211 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 224914006212 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 224914006213 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 224914006214 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 224914006215 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 224914006216 Substrate binding site; other site 224914006217 metal-binding site 224914006218 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 224914006219 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 224914006220 Phosphotransferase enzyme family; Region: APH; pfam01636 224914006221 PAS fold; Region: PAS_7; pfam12860 224914006222 PAS fold; Region: PAS_7; pfam12860 224914006223 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 224914006224 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 224914006225 dimer interface [polypeptide binding]; other site 224914006226 phosphorylation site [posttranslational modification] 224914006227 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 224914006228 ATP binding site [chemical binding]; other site 224914006229 Mg2+ binding site [ion binding]; other site 224914006230 G-X-G motif; other site 224914006231 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 224914006232 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 224914006233 homotetramer interface [polypeptide binding]; other site 224914006234 ligand binding site [chemical binding]; other site 224914006235 catalytic site [active] 224914006236 NAD binding site [chemical binding]; other site 224914006237 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 224914006238 dimerization domain swap beta strand [polypeptide binding]; other site 224914006239 regulatory protein interface [polypeptide binding]; other site 224914006240 active site 224914006241 regulatory phosphorylation site [posttranslational modification]; other site 224914006242 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 224914006243 active pocket/dimerization site; other site 224914006244 active site 224914006245 phosphorylation site [posttranslational modification] 224914006246 Serine kinase of the HPr protein, regulates carbohydrate metabolism [Signal transduction mechanisms]; Region: HprK; COG1493 224914006247 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 224914006248 Hpr binding site; other site 224914006249 active site 224914006250 homohexamer subunit interaction site [polypeptide binding]; other site 224914006251 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 224914006252 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 224914006253 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 224914006254 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 224914006255 dimerization interface [polypeptide binding]; other site 224914006256 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 224914006257 dimer interface [polypeptide binding]; other site 224914006258 phosphorylation site [posttranslational modification] 224914006259 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 224914006260 ATP binding site [chemical binding]; other site 224914006261 Mg2+ binding site [ion binding]; other site 224914006262 G-X-G motif; other site 224914006263 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 224914006264 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 224914006265 active site 224914006266 phosphorylation site [posttranslational modification] 224914006267 intermolecular recognition site; other site 224914006268 dimerization interface [polypeptide binding]; other site 224914006269 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 224914006270 DNA binding site [nucleotide binding] 224914006271 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 224914006272 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 224914006273 active site 224914006274 substrate-binding site [chemical binding]; other site 224914006275 metal-binding site [ion binding] 224914006276 ATP binding site [chemical binding]; other site 224914006277 hypothetical protein; Provisional; Region: PRK09256 224914006278 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 224914006279 pantothenate kinase; Provisional; Region: PRK05439 224914006280 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 224914006281 ATP-binding site [chemical binding]; other site 224914006282 CoA-binding site [chemical binding]; other site 224914006283 Mg2+-binding site [ion binding]; other site 224914006284 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 224914006285 metal binding site [ion binding]; metal-binding site 224914006286 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 224914006287 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 224914006288 substrate binding site [chemical binding]; other site 224914006289 glutamase interaction surface [polypeptide binding]; other site 224914006290 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 224914006291 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 224914006292 catalytic residues [active] 224914006293 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 224914006294 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 224914006295 putative active site [active] 224914006296 oxyanion strand; other site 224914006297 catalytic triad [active] 224914006298 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 224914006299 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 224914006300 putative active site pocket [active] 224914006301 4-fold oligomerization interface [polypeptide binding]; other site 224914006302 metal binding residues [ion binding]; metal-binding site 224914006303 3-fold/trimer interface [polypeptide binding]; other site 224914006304 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 224914006305 active site 224914006306 HslU subunit interaction site [polypeptide binding]; other site 224914006307 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 224914006308 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 224914006309 Walker A motif; other site 224914006310 ATP binding site [chemical binding]; other site 224914006311 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 224914006312 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 224914006313 Protein of unknown function (DUF1402); Region: DUF1402; pfam07182 224914006314 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 224914006315 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 224914006316 sequence-specific DNA binding site [nucleotide binding]; other site 224914006317 salt bridge; other site 224914006318 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 224914006319 Smr domain; Region: Smr; pfam01713 224914006320 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 224914006321 MltA specific insert domain; Region: MltA; pfam03562 224914006322 3D domain; Region: 3D; pfam06725 224914006323 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 224914006324 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 224914006325 preprotein translocase subunit SecB; Validated; Region: PRK05751 224914006326 SecA binding site; other site 224914006327 Preprotein binding site; other site 224914006328 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 224914006329 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 224914006330 active site 224914006331 catalytic site [active] 224914006332 substrate binding site [chemical binding]; other site 224914006333 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 224914006334 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 224914006335 CoA-binding site [chemical binding]; other site 224914006336 ATP-binding [chemical binding]; other site 224914006337 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 224914006338 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 224914006339 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 224914006340 shikimate binding site; other site 224914006341 NAD(P) binding site [chemical binding]; other site 224914006342 Maf-like protein; Reviewed; Region: PRK00078 224914006343 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 224914006344 active site 224914006345 dimer interface [polypeptide binding]; other site 224914006346 PEP synthetase regulatory protein; Provisional; Region: PRK05339 224914006347 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 224914006348 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 224914006349 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224914006350 Walker A/P-loop; other site 224914006351 ATP binding site [chemical binding]; other site 224914006352 Q-loop/lid; other site 224914006353 ABC transporter signature motif; other site 224914006354 Walker B; other site 224914006355 D-loop; other site 224914006356 H-loop/switch region; other site 224914006357 TOBE domain; Region: TOBE; cl01440 224914006358 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914006359 dimer interface [polypeptide binding]; other site 224914006360 conserved gate region; other site 224914006361 putative PBP binding loops; other site 224914006362 ABC-ATPase subunit interface; other site 224914006363 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 224914006364 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 224914006365 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 224914006366 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 224914006367 active site residue [active] 224914006368 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 224914006369 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 224914006370 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 224914006371 active site 224914006372 intersubunit interface [polypeptide binding]; other site 224914006373 catalytic residue [active] 224914006374 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 224914006375 Bacterial protein of unknown function (DUF882); Region: Peptidase_M15_2; pfam05951 224914006376 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 224914006377 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 224914006378 active site 224914006379 phosphorylation site [posttranslational modification] 224914006380 intermolecular recognition site; other site 224914006381 dimerization interface [polypeptide binding]; other site 224914006382 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 224914006383 Walker A motif; other site 224914006384 ATP binding site [chemical binding]; other site 224914006385 Walker B motif; other site 224914006386 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 224914006387 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 224914006388 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 224914006389 active site 224914006390 Zn binding site [ion binding]; other site 224914006391 aminodeoxychorismate synthase; Provisional; Region: PRK07508 224914006392 chorismate binding enzyme; Region: Chorismate_bind; cl10555 224914006393 hypothetical protein; Provisional; Region: PRK07546 224914006394 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 224914006395 substrate-cofactor binding pocket; other site 224914006396 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914006397 homodimer interface [polypeptide binding]; other site 224914006398 catalytic residue [active] 224914006399 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 224914006400 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 224914006401 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 224914006402 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 224914006403 ferrochelatase; Reviewed; Region: hemH; PRK00035 224914006404 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 224914006405 C-terminal domain interface [polypeptide binding]; other site 224914006406 active site 224914006407 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 224914006408 active site 224914006409 N-terminal domain interface [polypeptide binding]; other site 224914006410 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 224914006411 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 224914006412 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 224914006413 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 224914006414 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 224914006415 putative active site [active] 224914006416 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 224914006417 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5338 224914006418 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 224914006419 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 224914006420 active site 224914006421 tetramer interface; other site 224914006422 lytic murein transglycosylase; Region: MltB_2; TIGR02283 224914006423 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 224914006424 N-acetyl-D-glucosamine binding site [chemical binding]; other site 224914006425 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 224914006426 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 224914006427 N-acetyl-D-glucosamine binding site [chemical binding]; other site 224914006428 catalytic residue [active] 224914006429 TrbC/VIRB2 family; Region: TrbC; pfam04956 224914006430 Type IV secretory pathway, VirB3 components [Intracellular trafficking and secretion]; Region: VirB3; COG3702 224914006431 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 224914006432 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 224914006433 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 224914006434 Type IV secretion system proteins; Region: T4SS; pfam07996 224914006435 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 224914006436 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 224914006437 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 224914006438 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 224914006439 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 224914006440 VirB7 interaction site; other site 224914006441 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 224914006442 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 224914006443 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 224914006444 ATP binding site [chemical binding]; other site 224914006445 Walker A motif; other site 224914006446 hexamer interface [polypeptide binding]; other site 224914006447 Walker B motif; other site 224914006448 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 224914006449 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 224914006450 ligand binding site [chemical binding]; other site 224914006451 SGNH_peri2; putative periplasmic member of the SGNH-family of 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...; Region: SGNH_hydrolase_peri2; cd01829 224914006452 active site 224914006453 catalytic triad [active] 224914006454 oxyanion hole [active] 224914006455 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 224914006456 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 224914006457 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 224914006458 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 224914006459 active site 224914006460 dimer interface [polypeptide binding]; other site 224914006461 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 224914006462 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 224914006463 active site 224914006464 FMN binding site [chemical binding]; other site 224914006465 substrate binding site [chemical binding]; other site 224914006466 3Fe-4S cluster binding site [ion binding]; other site 224914006467 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 224914006468 domain interface; other site 224914006469 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 224914006470 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 224914006471 tetramer interface [polypeptide binding]; other site 224914006472 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914006473 catalytic residue [active] 224914006474 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 224914006475 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 224914006476 putative dimer interface [polypeptide binding]; other site 224914006477 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 224914006478 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 224914006479 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 224914006480 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 224914006481 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 224914006482 active site 224914006483 N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: HutG; COG3741 224914006484 Response regulator receiver domain; Region: Response_reg; pfam00072 224914006485 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 224914006486 active site 224914006487 phosphorylation site [posttranslational modification] 224914006488 intermolecular recognition site; other site 224914006489 dimerization interface [polypeptide binding]; other site 224914006490 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 224914006491 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 224914006492 active site 224914006493 phosphorylation site [posttranslational modification] 224914006494 intermolecular recognition site; other site 224914006495 dimerization interface [polypeptide binding]; other site 224914006496 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 224914006497 dimerization interface [polypeptide binding]; other site 224914006498 DNA binding residues [nucleotide binding] 224914006499 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 224914006500 dimer interface [polypeptide binding]; other site 224914006501 phosphorylation site [posttranslational modification] 224914006502 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 224914006503 ATP binding site [chemical binding]; other site 224914006504 Mg2+ binding site [ion binding]; other site 224914006505 G-X-G motif; other site 224914006506 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 224914006507 MgtC family; Region: MgtC; pfam02308 224914006508 magnesium-transporting ATPase; Provisional; Region: PRK15122 224914006509 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 224914006510 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 224914006511 Soluble P-type ATPase [General function prediction only]; Region: COG4087 224914006512 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 224914006513 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 224914006514 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 224914006515 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 224914006516 shikimate binding site; other site 224914006517 NAD(P) binding site [chemical binding]; other site 224914006518 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 224914006519 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 224914006520 E3 interaction surface; other site 224914006521 lipoyl attachment site [posttranslational modification]; other site 224914006522 e3 binding domain; Region: E3_binding; pfam02817 224914006523 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 224914006524 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 224914006525 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 224914006526 tetramer interface [polypeptide binding]; other site 224914006527 TPP-binding site [chemical binding]; other site 224914006528 heterodimer interface [polypeptide binding]; other site 224914006529 phosphorylation loop region [posttranslational modification] 224914006530 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 224914006531 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 224914006532 alpha subunit interface [polypeptide binding]; other site 224914006533 TPP binding site [chemical binding]; other site 224914006534 heterodimer interface [polypeptide binding]; other site 224914006535 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 224914006536 classical (c) SDRs; Region: SDR_c; cd05233 224914006537 NAD(P) binding site [chemical binding]; other site 224914006538 active site 224914006539 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 224914006540 classical (c) SDRs; Region: SDR_c; cd05233 224914006541 NAD(P) binding site [chemical binding]; other site 224914006542 active site 224914006543 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 224914006544 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 224914006545 active site 224914006546 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 224914006547 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 224914006548 Walker A/P-loop; other site 224914006549 ATP binding site [chemical binding]; other site 224914006550 Q-loop/lid; other site 224914006551 ABC transporter signature motif; other site 224914006552 Walker B; other site 224914006553 D-loop; other site 224914006554 H-loop/switch region; other site 224914006555 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 224914006556 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 224914006557 Walker A/P-loop; other site 224914006558 ATP binding site [chemical binding]; other site 224914006559 Q-loop/lid; other site 224914006560 ABC transporter signature motif; other site 224914006561 Walker B; other site 224914006562 D-loop; other site 224914006563 H-loop/switch region; other site 224914006564 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 224914006565 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 224914006566 TM-ABC transporter signature motif; other site 224914006567 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 224914006568 TM-ABC transporter signature motif; other site 224914006569 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 224914006570 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 224914006571 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 224914006572 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 224914006573 Transcriptional regulators [Transcription]; Region: FadR; COG2186 224914006574 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224914006575 DNA-binding site [nucleotide binding]; DNA binding site 224914006576 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 224914006577 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 224914006578 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 224914006579 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4944 224914006580 pentapeptide MXKDX repeat protein; Region: penta_MxKDx; TIGR02953 224914006581 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 224914006582 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 224914006583 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 224914006584 bacterial subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. This domain is found in a variety of oxidoreductases. Common features of all known members of this family, like sulfite oxidase and nitrite reductase, are that they...; Region: bact_SO_family_Moco; cd02108 224914006585 Moco binding site; other site 224914006586 metal coordination site [ion binding]; other site 224914006587 Condensation domain; Region: Condensation; pfam00668 224914006588 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 224914006589 isochorismate synthases; Region: isochor_syn; TIGR00543 224914006590 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 224914006591 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 224914006592 acyl-activating enzyme (AAE) consensus motif; other site 224914006593 active site 224914006594 AMP binding site [chemical binding]; other site 224914006595 substrate binding site [chemical binding]; other site 224914006596 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 224914006597 hydrophobic substrate binding pocket; other site 224914006598 Isochorismatase family; Region: Isochorismatase; pfam00857 224914006599 active site 224914006600 conserved cis-peptide bond; other site 224914006601 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 224914006602 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 224914006603 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 224914006604 putative NAD(P) binding site [chemical binding]; other site 224914006605 active site 224914006606 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 224914006607 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 224914006608 Predicted secreted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5664 224914006609 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 224914006610 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 224914006611 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 224914006612 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 224914006613 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 224914006614 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 224914006615 Walker A/P-loop; other site 224914006616 ATP binding site [chemical binding]; other site 224914006617 Q-loop/lid; other site 224914006618 ABC transporter signature motif; other site 224914006619 Walker B; other site 224914006620 D-loop; other site 224914006621 H-loop/switch region; other site 224914006622 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 224914006623 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 224914006624 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 224914006625 TM-ABC transporter signature motif; other site 224914006626 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 224914006627 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 224914006628 TM-ABC transporter signature motif; other site 224914006629 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 224914006630 active site 224914006631 tetramer interface [polypeptide binding]; other site 224914006632 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 224914006633 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 224914006634 substrate binding site [chemical binding]; other site 224914006635 dimer interface [polypeptide binding]; other site 224914006636 ATP binding site [chemical binding]; other site 224914006637 replication initiation protein RepC; Provisional; Region: PRK13824 224914006638 Replication protein C N-terminal domain; Region: RP-C; pfam03428 224914006639 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 224914006640 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 224914006641 ParB-like nuclease domain; Region: ParB; smart00470 224914006642 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 224914006643 MerR family regulatory protein; Region: MerR; pfam00376 224914006644 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 224914006645 P-loop; other site 224914006646 Magnesium ion binding site [ion binding]; other site 224914006647 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 224914006648 P-loop; other site 224914006649 Magnesium ion binding site [ion binding]; other site 224914006650 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 224914006651 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 224914006652 FeS/SAM binding site; other site 224914006653 HemN C-terminal domain; Region: HemN_C; pfam06969 224914006654 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 224914006655 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 224914006656 Soluble P-type ATPase [General function prediction only]; Region: COG4087 224914006657 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 224914006658 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 224914006659 Walker A/P-loop; other site 224914006660 ATP binding site [chemical binding]; other site 224914006661 Q-loop/lid; other site 224914006662 ABC transporter signature motif; other site 224914006663 Walker B; other site 224914006664 D-loop; other site 224914006665 H-loop/switch region; other site 224914006666 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 224914006667 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224914006668 Q-loop/lid; other site 224914006669 ABC transporter signature motif; other site 224914006670 Walker B; other site 224914006671 D-loop; other site 224914006672 H-loop/switch region; other site 224914006673 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 224914006674 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224914006675 Walker A/P-loop; other site 224914006676 ATP binding site [chemical binding]; other site 224914006677 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 224914006678 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 224914006679 TM-ABC transporter signature motif; other site 224914006680 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 224914006681 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 224914006682 TM-ABC transporter signature motif; other site 224914006683 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 224914006684 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_5; cd06338 224914006685 putative ligand binding site [chemical binding]; other site 224914006686 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 224914006687 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224914006688 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 224914006689 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 224914006690 N-terminal plug; other site 224914006691 ligand-binding site [chemical binding]; other site 224914006692 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 224914006693 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 224914006694 nucleotide binding site [chemical binding]; other site 224914006695 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 224914006696 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914006697 dimer interface [polypeptide binding]; other site 224914006698 conserved gate region; other site 224914006699 putative PBP binding loops; other site 224914006700 ABC-ATPase subunit interface; other site 224914006701 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 224914006702 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 224914006703 Walker A/P-loop; other site 224914006704 ATP binding site [chemical binding]; other site 224914006705 Q-loop/lid; other site 224914006706 ABC transporter signature motif; other site 224914006707 Walker B; other site 224914006708 D-loop; other site 224914006709 H-loop/switch region; other site 224914006710 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 224914006711 NMT1-like family; Region: NMT1_2; pfam13379 224914006712 substrate binding pocket [chemical binding]; other site 224914006713 membrane-bound complex binding site; other site 224914006714 hinge residues; other site 224914006715 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 224914006716 Sulfatase; Region: Sulfatase; cl17466 224914006717 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 224914006718 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 224914006719 active site 224914006720 metal binding site [ion binding]; metal-binding site 224914006721 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 224914006722 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224914006723 Walker A/P-loop; other site 224914006724 ATP binding site [chemical binding]; other site 224914006725 Q-loop/lid; other site 224914006726 ABC transporter signature motif; other site 224914006727 Walker B; other site 224914006728 D-loop; other site 224914006729 H-loop/switch region; other site 224914006730 TOBE domain; Region: TOBE_2; pfam08402 224914006731 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 224914006732 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914006733 dimer interface [polypeptide binding]; other site 224914006734 conserved gate region; other site 224914006735 putative PBP binding loops; other site 224914006736 ABC-ATPase subunit interface; other site 224914006737 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 224914006738 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914006739 dimer interface [polypeptide binding]; other site 224914006740 conserved gate region; other site 224914006741 putative PBP binding loops; other site 224914006742 ABC-ATPase subunit interface; other site 224914006743 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 224914006744 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 224914006745 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 224914006746 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224914006747 DNA-binding site [nucleotide binding]; DNA binding site 224914006748 UTRA domain; Region: UTRA; pfam07702 224914006749 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 224914006750 Protein of unknown function (DUF1634); Region: DUF1634; pfam07843 224914006751 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 224914006752 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 224914006753 Walker A/P-loop; other site 224914006754 ATP binding site [chemical binding]; other site 224914006755 Q-loop/lid; other site 224914006756 ABC transporter signature motif; other site 224914006757 Walker B; other site 224914006758 D-loop; other site 224914006759 H-loop/switch region; other site 224914006760 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 224914006761 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 224914006762 TM-ABC transporter signature motif; other site 224914006763 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 224914006764 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 224914006765 Walker A/P-loop; other site 224914006766 ATP binding site [chemical binding]; other site 224914006767 Q-loop/lid; other site 224914006768 ABC transporter signature motif; other site 224914006769 Walker B; other site 224914006770 D-loop; other site 224914006771 H-loop/switch region; other site 224914006772 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 224914006773 TM-ABC transporter signature motif; other site 224914006774 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 224914006775 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 224914006776 putative ligand binding site [chemical binding]; other site 224914006777 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 224914006778 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 224914006779 active site 224914006780 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 224914006781 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 224914006782 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 224914006783 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 224914006784 Transcriptional regulator [Transcription]; Region: IclR; COG1414 224914006785 Bacterial transcriptional regulator; Region: IclR; pfam01614 224914006786 Uncharacterized conserved protein [Function unknown]; Region: COG5441 224914006787 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 224914006788 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 224914006789 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 224914006790 motif II; other site 224914006791 hypothetical protein; Provisional; Region: PRK07481 224914006792 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 224914006793 inhibitor-cofactor binding pocket; inhibition site 224914006794 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914006795 catalytic residue [active] 224914006796 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 224914006797 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 224914006798 inhibitor-cofactor binding pocket; inhibition site 224914006799 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914006800 catalytic residue [active] 224914006801 Phosphotransferase enzyme family; Region: APH; pfam01636 224914006802 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 224914006803 active site 224914006804 ATP binding site [chemical binding]; other site 224914006805 substrate binding site [chemical binding]; other site 224914006806 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 224914006807 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 224914006808 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 224914006809 putative substrate binding pocket [chemical binding]; other site 224914006810 trimer interface [polypeptide binding]; other site 224914006811 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 224914006812 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 224914006813 NAD binding site [chemical binding]; other site 224914006814 catalytic residues [active] 224914006815 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 224914006816 N-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD); belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_N_class_II; cd07266 224914006817 tetramer interface [polypeptide binding]; other site 224914006818 C-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD), which catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate; belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_C_class_II; cd07256 224914006819 tetramer interface [polypeptide binding]; other site 224914006820 active site 224914006821 metal binding site [ion binding]; metal-binding site 224914006822 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 224914006823 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 224914006824 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 224914006825 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase; Region: HpaI; TIGR02311 224914006826 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 224914006827 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 224914006828 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 224914006829 NAD(P) binding site [chemical binding]; other site 224914006830 catalytic residues [active] 224914006831 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 224914006832 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 224914006833 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 224914006834 HTH domain; Region: HTH_11; cl17392 224914006835 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224914006836 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 224914006837 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 224914006838 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 224914006839 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 224914006840 TM-ABC transporter signature motif; other site 224914006841 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 224914006842 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 224914006843 Walker A/P-loop; other site 224914006844 ATP binding site [chemical binding]; other site 224914006845 Q-loop/lid; other site 224914006846 ABC transporter signature motif; other site 224914006847 Walker B; other site 224914006848 D-loop; other site 224914006849 H-loop/switch region; other site 224914006850 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 224914006851 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 224914006852 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 224914006853 putative ligand binding site [chemical binding]; other site 224914006854 Uncharacterized conserved protein [Function unknown]; Region: COG3268 224914006855 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 224914006856 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 224914006857 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 224914006858 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 224914006859 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 224914006860 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 224914006861 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 224914006862 Autotransporter beta-domain; Region: Autotransporter; smart00869 224914006863 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 224914006864 flagellin; Reviewed; Region: PRK12687 224914006865 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 224914006866 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 224914006867 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 224914006868 Flagellar basal body M-ring protein [Cell motility and secretion]; Region: fliF; COG1766 224914006869 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 224914006870 flagellar motor protein MotB; Validated; Region: motB; PRK05996 224914006871 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 224914006872 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 224914006873 ligand binding site [chemical binding]; other site 224914006874 chemotaxis protein; Reviewed; Region: PRK12798 224914006875 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 224914006876 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 224914006877 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 224914006878 N-acetyl-D-glucosamine binding site [chemical binding]; other site 224914006879 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 224914006880 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 224914006881 DNA binding site [nucleotide binding] 224914006882 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 224914006883 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 224914006884 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 224914006885 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 224914006886 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 224914006887 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 224914006888 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 224914006889 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 224914006890 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 224914006891 Flagellar biosynthesis regulator FlaF [Cell motility and secretion]; Region: FlaF; COG5442 224914006892 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12793 224914006893 Flagellar biosynthesis regulator FlbT [Cell motility and secretion]; Region: FlbT; COG5443 224914006894 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06009 224914006895 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 224914006896 flagellar biosynthesis protein FliQ; Reviewed; Region: fliQ; PRK06010 224914006897 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 224914006898 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 224914006899 FHIPEP family; Region: FHIPEP; pfam00771 224914006900 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 224914006901 Rod binding protein; Region: Rod-binding; pfam10135 224914006902 FlgN protein; Region: FlgN; pfam05130 224914006903 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 224914006904 metal binding site 2 [ion binding]; metal-binding site 224914006905 putative DNA binding helix; other site 224914006906 metal binding site 1 [ion binding]; metal-binding site 224914006907 dimer interface [polypeptide binding]; other site 224914006908 structural Zn2+ binding site [ion binding]; other site 224914006909 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 224914006910 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 224914006911 ABC-ATPase subunit interface; other site 224914006912 dimer interface [polypeptide binding]; other site 224914006913 putative PBP binding regions; other site 224914006914 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 224914006915 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 224914006916 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 224914006917 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 224914006918 metal binding site [ion binding]; metal-binding site 224914006919 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 224914006920 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 224914006921 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 224914006922 Rrf2 family protein; Region: rrf2_super; TIGR00738 224914006923 Transcriptional regulator; Region: Rrf2; pfam02082 224914006924 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 224914006925 putative transposase OrfB; Reviewed; Region: PHA02517 224914006926 HTH-like domain; Region: HTH_21; pfam13276 224914006927 Integrase core domain; Region: rve; pfam00665 224914006928 Integrase core domain; Region: rve_3; pfam13683 224914006929 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 224914006930 Transposase; Region: HTH_Tnp_1; pfam01527 224914006931 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 224914006932 Growth inhibitor [Signal transduction mechanisms]; Region: MazF; COG2337 224914006933 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 224914006934 Ribulose-5-phosphate 4-epimerase and related epimerases and aldolases [Carbohydrate transport and metabolism]; Region: AraD; COG0235 224914006935 intersubunit interface [polypeptide binding]; other site 224914006936 active site 224914006937 Zn2+ binding site [ion binding]; other site 224914006938 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 224914006939 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 224914006940 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 224914006941 catalytic residue [active] 224914006942 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 224914006943 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224914006944 Walker A/P-loop; other site 224914006945 ATP binding site [chemical binding]; other site 224914006946 Q-loop/lid; other site 224914006947 ABC transporter signature motif; other site 224914006948 Walker B; other site 224914006949 D-loop; other site 224914006950 H-loop/switch region; other site 224914006951 TOBE domain; Region: TOBE_2; pfam08402 224914006952 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914006953 dimer interface [polypeptide binding]; other site 224914006954 conserved gate region; other site 224914006955 putative PBP binding loops; other site 224914006956 ABC-ATPase subunit interface; other site 224914006957 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 224914006958 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914006959 dimer interface [polypeptide binding]; other site 224914006960 conserved gate region; other site 224914006961 putative PBP binding loops; other site 224914006962 ABC-ATPase subunit interface; other site 224914006963 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 224914006964 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 224914006965 amidase; Provisional; Region: PRK07486 224914006966 Amidase; Region: Amidase; cl11426 224914006967 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 224914006968 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 224914006969 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 224914006970 Walker A/P-loop; other site 224914006971 ATP binding site [chemical binding]; other site 224914006972 Q-loop/lid; other site 224914006973 ABC transporter signature motif; other site 224914006974 Walker B; other site 224914006975 D-loop; other site 224914006976 H-loop/switch region; other site 224914006977 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 224914006978 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 224914006979 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 224914006980 Walker A/P-loop; other site 224914006981 ATP binding site [chemical binding]; other site 224914006982 Q-loop/lid; other site 224914006983 ABC transporter signature motif; other site 224914006984 Walker B; other site 224914006985 D-loop; other site 224914006986 H-loop/switch region; other site 224914006987 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 224914006988 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 224914006989 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914006990 dimer interface [polypeptide binding]; other site 224914006991 conserved gate region; other site 224914006992 putative PBP binding loops; other site 224914006993 ABC-ATPase subunit interface; other site 224914006994 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 224914006995 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914006996 dimer interface [polypeptide binding]; other site 224914006997 conserved gate region; other site 224914006998 putative PBP binding loops; other site 224914006999 ABC-ATPase subunit interface; other site 224914007000 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 224914007001 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 224914007002 Transcriptional regulators [Transcription]; Region: GntR; COG1802 224914007003 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 224914007004 DNA-binding site [nucleotide binding]; DNA binding site 224914007005 FCD domain; Region: FCD; pfam07729 224914007006 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 224914007007 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 224914007008 Walker A/P-loop; other site 224914007009 ATP binding site [chemical binding]; other site 224914007010 Q-loop/lid; other site 224914007011 ABC transporter signature motif; other site 224914007012 Walker B; other site 224914007013 D-loop; other site 224914007014 H-loop/switch region; other site 224914007015 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 224914007016 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 224914007017 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 224914007018 Walker A/P-loop; other site 224914007019 ATP binding site [chemical binding]; other site 224914007020 Q-loop/lid; other site 224914007021 ABC transporter signature motif; other site 224914007022 Walker B; other site 224914007023 D-loop; other site 224914007024 H-loop/switch region; other site 224914007025 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 224914007026 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 224914007027 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914007028 putative PBP binding loops; other site 224914007029 dimer interface [polypeptide binding]; other site 224914007030 ABC-ATPase subunit interface; other site 224914007031 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 224914007032 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 224914007033 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914007034 dimer interface [polypeptide binding]; other site 224914007035 conserved gate region; other site 224914007036 putative PBP binding loops; other site 224914007037 ABC-ATPase subunit interface; other site 224914007038 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 224914007039 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_16; cd08502 224914007040 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 224914007041 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 224914007042 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 224914007043 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 224914007044 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 224914007045 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 224914007046 active site 224914007047 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 224914007048 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 224914007049 active site 224914007050 enoyl-CoA hydratase; Provisional; Region: PRK08138 224914007051 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 224914007052 substrate binding site [chemical binding]; other site 224914007053 oxyanion hole (OAH) forming residues; other site 224914007054 trimer interface [polypeptide binding]; other site 224914007055 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 224914007056 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 224914007057 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 224914007058 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 224914007059 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 224914007060 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 224914007061 tetramer interface [polypeptide binding]; other site 224914007062 TPP-binding site [chemical binding]; other site 224914007063 heterodimer interface [polypeptide binding]; other site 224914007064 phosphorylation loop region [posttranslational modification] 224914007065 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 224914007066 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 224914007067 alpha subunit interface [polypeptide binding]; other site 224914007068 TPP binding site [chemical binding]; other site 224914007069 heterodimer interface [polypeptide binding]; other site 224914007070 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 224914007071 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 224914007072 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 224914007073 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 224914007074 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 224914007075 E3 interaction surface; other site 224914007076 lipoyl attachment site [posttranslational modification]; other site 224914007077 e3 binding domain; Region: E3_binding; pfam02817 224914007078 Serine hydrolase; Region: Ser_hydrolase; cl17834 224914007079 Transcriptional regulator [Transcription]; Region: IclR; COG1414 224914007080 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 224914007081 Bacterial transcriptional regulator; Region: IclR; pfam01614 224914007082 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 224914007083 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914007084 dimer interface [polypeptide binding]; other site 224914007085 conserved gate region; other site 224914007086 putative PBP binding loops; other site 224914007087 ABC-ATPase subunit interface; other site 224914007088 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 224914007089 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 224914007090 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 224914007091 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 224914007092 Walker A/P-loop; other site 224914007093 ATP binding site [chemical binding]; other site 224914007094 Q-loop/lid; other site 224914007095 ABC transporter signature motif; other site 224914007096 Walker B; other site 224914007097 D-loop; other site 224914007098 H-loop/switch region; other site 224914007099 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 224914007100 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 224914007101 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 224914007102 Walker A/P-loop; other site 224914007103 ATP binding site [chemical binding]; other site 224914007104 Q-loop/lid; other site 224914007105 ABC transporter signature motif; other site 224914007106 Walker B; other site 224914007107 D-loop; other site 224914007108 H-loop/switch region; other site 224914007109 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 224914007110 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 224914007111 CoA-transferase family III; Region: CoA_transf_3; pfam02515 224914007112 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 224914007113 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 224914007114 tetramerization interface [polypeptide binding]; other site 224914007115 NAD(P) binding site [chemical binding]; other site 224914007116 catalytic residues [active] 224914007117 Transcriptional regulators [Transcription]; Region: GntR; COG1802 224914007118 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224914007119 DNA-binding site [nucleotide binding]; DNA binding site 224914007120 FCD domain; Region: FCD; pfam07729 224914007121 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 224914007122 Transposase; Region: HTH_Tnp_1; pfam01527 224914007123 putative transposase OrfB; Reviewed; Region: PHA02517 224914007124 HTH-like domain; Region: HTH_21; pfam13276 224914007125 Integrase core domain; Region: rve; pfam00665 224914007126 Integrase core domain; Region: rve_3; pfam13683 224914007127 methionine sulfoxide reductase A; Provisional; Region: PRK00058 224914007128 hypothetical protein; Provisional; Region: PRK00736 224914007129 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 224914007130 active site 224914007131 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 224914007132 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 224914007133 S-adenosylmethionine binding site [chemical binding]; other site 224914007134 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 224914007135 ABC1 family; Region: ABC1; pfam03109 224914007136 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 224914007137 active site 224914007138 ATP binding site [chemical binding]; other site 224914007139 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 224914007140 substrate binding site [chemical binding]; other site 224914007141 activation loop (A-loop); other site 224914007142 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 224914007143 Flavoprotein; Region: Flavoprotein; pfam02441 224914007144 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 224914007145 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 224914007146 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 224914007147 G1 box; other site 224914007148 putative GEF interaction site [polypeptide binding]; other site 224914007149 GTP/Mg2+ binding site [chemical binding]; other site 224914007150 Switch I region; other site 224914007151 G2 box; other site 224914007152 G3 box; other site 224914007153 Switch II region; other site 224914007154 G4 box; other site 224914007155 G5 box; other site 224914007156 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 224914007157 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 224914007158 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 224914007159 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 224914007160 putative active site [active] 224914007161 catalytic site [active] 224914007162 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 224914007163 putative active site [active] 224914007164 catalytic site [active] 224914007165 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 224914007166 putative catalytic site [active] 224914007167 putative metal binding site [ion binding]; other site 224914007168 putative phosphate binding site [ion binding]; other site 224914007169 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 224914007170 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 224914007171 NAD(P) binding site [chemical binding]; other site 224914007172 catalytic residues [active] 224914007173 Predicted membrane protein [Function unknown]; Region: COG3714 224914007174 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 224914007175 Ligand Binding Site [chemical binding]; other site 224914007176 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 224914007177 putative FMN binding site [chemical binding]; other site 224914007178 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 224914007179 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 224914007180 active site 224914007181 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 224914007182 catalytic core [active] 224914007183 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 224914007184 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 224914007185 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 224914007186 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 224914007187 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 224914007188 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 224914007189 Walker A/P-loop; other site 224914007190 ATP binding site [chemical binding]; other site 224914007191 Q-loop/lid; other site 224914007192 ABC transporter signature motif; other site 224914007193 Walker B; other site 224914007194 D-loop; other site 224914007195 H-loop/switch region; other site 224914007196 Glucokinase [Carbohydrate transport and metabolism]; Region: Glk; COG0837 224914007197 glucokinase, proteobacterial type; Region: glk; TIGR00749 224914007198 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 224914007199 active site 224914007200 dimer interfaces [polypeptide binding]; other site 224914007201 catalytic residues [active] 224914007202 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 224914007203 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 224914007204 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 224914007205 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 224914007206 putative NAD(P) binding site [chemical binding]; other site 224914007207 epoxyqueuosine reductase; Region: TIGR00276 224914007208 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 224914007209 HEAT repeat; Region: HEAT; pfam02985 224914007210 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 224914007211 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 224914007212 C-terminal domain interface [polypeptide binding]; other site 224914007213 GSH binding site (G-site) [chemical binding]; other site 224914007214 dimer interface [polypeptide binding]; other site 224914007215 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 224914007216 N-terminal domain interface [polypeptide binding]; other site 224914007217 dimer interface [polypeptide binding]; other site 224914007218 substrate binding pocket (H-site) [chemical binding]; other site 224914007219 Undecaprenyl pyrophosphate phosphatase [Lipid transport and metabolism]; Region: BacA; COG1968 224914007220 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 224914007221 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 224914007222 putative NAD(P) binding site [chemical binding]; other site 224914007223 active site 224914007224 GTP-binding protein LepA; Provisional; Region: PRK05433 224914007225 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 224914007226 G1 box; other site 224914007227 putative GEF interaction site [polypeptide binding]; other site 224914007228 GTP/Mg2+ binding site [chemical binding]; other site 224914007229 Switch I region; other site 224914007230 G2 box; other site 224914007231 G3 box; other site 224914007232 Switch II region; other site 224914007233 G4 box; other site 224914007234 G5 box; other site 224914007235 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 224914007236 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 224914007237 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 224914007238 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 224914007239 GIY-YIG motif/motif A; other site 224914007240 putative active site [active] 224914007241 putative metal binding site [ion binding]; other site 224914007242 Uncharacterized protein conserved in bacteria [Posttranslational modification, protein turnover, chaperones]; Region: COG3526 224914007243 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 224914007244 RmuC family; Region: RmuC; pfam02646 224914007245 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 224914007246 active site 224914007247 catalytic residues [active] 224914007248 metal binding site [ion binding]; metal-binding site 224914007249 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 224914007250 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 224914007251 putative active site [active] 224914007252 substrate binding site [chemical binding]; other site 224914007253 putative cosubstrate binding site; other site 224914007254 catalytic site [active] 224914007255 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 224914007256 substrate binding site [chemical binding]; other site 224914007257 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 224914007258 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 224914007259 dimerization interface 3.5A [polypeptide binding]; other site 224914007260 active site 224914007261 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 224914007262 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 224914007263 metal binding site [ion binding]; metal-binding site 224914007264 dimer interface [polypeptide binding]; other site 224914007265 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 224914007266 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 224914007267 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 224914007268 trimer interface [polypeptide binding]; other site 224914007269 active site 224914007270 substrate binding site [chemical binding]; other site 224914007271 CoA binding site [chemical binding]; other site 224914007272 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 224914007273 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 224914007274 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 224914007275 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 224914007276 homohexameric interface [polypeptide binding]; other site 224914007277 feedback inhibition sensing region; other site 224914007278 nucleotide binding site [chemical binding]; other site 224914007279 N-acetyl-L-glutamate binding site [chemical binding]; other site 224914007280 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 224914007281 G1 box; other site 224914007282 GTP/Mg2+ binding site [chemical binding]; other site 224914007283 Switch I region; other site 224914007284 G2 box; other site 224914007285 G3 box; other site 224914007286 Switch II region; other site 224914007287 G4 box; other site 224914007288 G5 box; other site 224914007289 membrane protein insertase; Provisional; Region: PRK01318 224914007290 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 224914007291 ribonuclease P; Reviewed; Region: rnpA; PRK01313 224914007292 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 224914007293 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 224914007294 homotrimer interaction site [polypeptide binding]; other site 224914007295 putative active site [active] 224914007296 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 224914007297 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 224914007298 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224914007299 putative substrate translocation pore; other site 224914007300 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 224914007301 Transcriptional regulators [Transcription]; Region: GntR; COG1802 224914007302 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224914007303 DNA-binding site [nucleotide binding]; DNA binding site 224914007304 FCD domain; Region: FCD; pfam07729 224914007305 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 224914007306 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 224914007307 NAD(P) binding site [chemical binding]; other site 224914007308 catalytic residues [active] 224914007309 catalytic residues [active] 224914007310 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 224914007311 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 224914007312 putative NAD(P) binding site [chemical binding]; other site 224914007313 active site 224914007314 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 224914007315 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_6; cd08494 224914007316 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 224914007317 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914007318 dimer interface [polypeptide binding]; other site 224914007319 conserved gate region; other site 224914007320 putative PBP binding loops; other site 224914007321 ABC-ATPase subunit interface; other site 224914007322 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 224914007323 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914007324 dimer interface [polypeptide binding]; other site 224914007325 conserved gate region; other site 224914007326 putative PBP binding loops; other site 224914007327 ABC-ATPase subunit interface; other site 224914007328 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 224914007329 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 224914007330 Walker A/P-loop; other site 224914007331 ATP binding site [chemical binding]; other site 224914007332 Q-loop/lid; other site 224914007333 ABC transporter signature motif; other site 224914007334 Walker B; other site 224914007335 D-loop; other site 224914007336 H-loop/switch region; other site 224914007337 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 224914007338 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 224914007339 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 224914007340 Walker A/P-loop; other site 224914007341 ATP binding site [chemical binding]; other site 224914007342 Q-loop/lid; other site 224914007343 ABC transporter signature motif; other site 224914007344 Walker B; other site 224914007345 D-loop; other site 224914007346 H-loop/switch region; other site 224914007347 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 224914007348 amidase; Provisional; Region: PRK07042 224914007349 Amidase; Region: Amidase; cl11426 224914007350 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 224914007351 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 224914007352 active site 224914007353 catalytic site [active] 224914007354 substrate binding site [chemical binding]; other site 224914007355 Predicted dehydrogenase [General function prediction only]; Region: COG0579 224914007356 hydroxyglutarate oxidase; Provisional; Region: PRK11728 224914007357 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 224914007358 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 224914007359 metal binding site [ion binding]; metal-binding site 224914007360 active site 224914007361 I-site; other site 224914007362 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 224914007363 glutathionine S-transferase; Provisional; Region: PRK10542 224914007364 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 224914007365 C-terminal domain interface [polypeptide binding]; other site 224914007366 GSH binding site (G-site) [chemical binding]; other site 224914007367 dimer interface [polypeptide binding]; other site 224914007368 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 224914007369 dimer interface [polypeptide binding]; other site 224914007370 N-terminal domain interface [polypeptide binding]; other site 224914007371 substrate binding pocket (H-site) [chemical binding]; other site 224914007372 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 224914007373 dimer interface [polypeptide binding]; other site 224914007374 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 224914007375 metal binding site [ion binding]; metal-binding site 224914007376 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 224914007377 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 224914007378 N-terminal plug; other site 224914007379 ligand-binding site [chemical binding]; other site 224914007380 Transcriptional regulator [Transcription]; Region: IclR; COG1414 224914007381 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 224914007382 Bacterial transcriptional regulator; Region: IclR; pfam01614 224914007383 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 224914007384 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 224914007385 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 224914007386 Walker A/P-loop; other site 224914007387 ATP binding site [chemical binding]; other site 224914007388 Q-loop/lid; other site 224914007389 ABC transporter signature motif; other site 224914007390 Walker B; other site 224914007391 D-loop; other site 224914007392 H-loop/switch region; other site 224914007393 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 224914007394 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 224914007395 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 224914007396 TM-ABC transporter signature motif; other site 224914007397 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 224914007398 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 224914007399 TM-ABC transporter signature motif; other site 224914007400 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 224914007401 homotrimer interaction site [polypeptide binding]; other site 224914007402 putative active site [active] 224914007403 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 224914007404 TMAO/DMSO reductase; Reviewed; Region: PRK05363 224914007405 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 224914007406 Moco binding site; other site 224914007407 metal coordination site [ion binding]; other site 224914007408 Predicted esterase [General function prediction only]; Region: COG0400 224914007409 putative hydrolase; Provisional; Region: PRK11460 224914007410 FOG: WD40 repeat [General function prediction only]; Region: COG2319 224914007411 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 224914007412 structural tetrad; other site 224914007413 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 224914007414 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 224914007415 P-loop, Walker A motif; other site 224914007416 Base recognition motif; other site 224914007417 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 224914007418 Creatinine amidohydrolase; Region: Creatininase; pfam02633 224914007419 MarR family; Region: MarR_2; cl17246 224914007420 transcriptional regulator SlyA; Provisional; Region: PRK03573 224914007421 Transcriptional regulators [Transcription]; Region: PurR; COG1609 224914007422 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 224914007423 DNA binding site [nucleotide binding] 224914007424 domain linker motif; other site 224914007425 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 224914007426 putative dimerization interface [polypeptide binding]; other site 224914007427 putative ligand binding site [chemical binding]; other site 224914007428 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 224914007429 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 224914007430 putative ligand binding site [chemical binding]; other site 224914007431 NAD binding site [chemical binding]; other site 224914007432 catalytic site [active] 224914007433 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 224914007434 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 224914007435 catalytic triad [active] 224914007436 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 224914007437 classical (c) SDRs; Region: SDR_c; cd05233 224914007438 NAD(P) binding site [chemical binding]; other site 224914007439 active site 224914007440 PAS fold; Region: PAS_7; pfam12860 224914007441 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 224914007442 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 224914007443 metal binding site [ion binding]; metal-binding site 224914007444 active site 224914007445 I-site; other site 224914007446 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 224914007447 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 224914007448 Beta-lactamase; Region: Beta-lactamase; pfam00144 224914007449 Beta-lactamase; Region: Beta-lactamase; cl17358 224914007450 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 224914007451 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 224914007452 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 224914007453 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 224914007454 ligand binding site [chemical binding]; other site 224914007455 homodimer interface [polypeptide binding]; other site 224914007456 NAD(P) binding site [chemical binding]; other site 224914007457 trimer interface B [polypeptide binding]; other site 224914007458 trimer interface A [polypeptide binding]; other site 224914007459 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 224914007460 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 224914007461 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 224914007462 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 224914007463 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 224914007464 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 224914007465 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 224914007466 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 224914007467 motif II; other site 224914007468 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 224914007469 putative active site [active] 224914007470 putative catalytic site [active] 224914007471 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 224914007472 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 224914007473 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 224914007474 TPR motif; other site 224914007475 binding surface 224914007476 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 224914007477 binding surface 224914007478 TPR motif; other site 224914007479 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 224914007480 binding surface 224914007481 TPR motif; other site 224914007482 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 224914007483 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 224914007484 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914007485 dimer interface [polypeptide binding]; other site 224914007486 conserved gate region; other site 224914007487 ABC-ATPase subunit interface; other site 224914007488 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 224914007489 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 224914007490 Walker A/P-loop; other site 224914007491 ATP binding site [chemical binding]; other site 224914007492 Q-loop/lid; other site 224914007493 ABC transporter signature motif; other site 224914007494 Walker B; other site 224914007495 D-loop; other site 224914007496 H-loop/switch region; other site 224914007497 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 224914007498 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 224914007499 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 224914007500 choline dehydrogenase; Validated; Region: PRK02106 224914007501 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 224914007502 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 224914007503 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 224914007504 TM-ABC transporter signature motif; other site 224914007505 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 224914007506 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 224914007507 TM-ABC transporter signature motif; other site 224914007508 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 224914007509 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 224914007510 Walker A/P-loop; other site 224914007511 ATP binding site [chemical binding]; other site 224914007512 Q-loop/lid; other site 224914007513 ABC transporter signature motif; other site 224914007514 Walker B; other site 224914007515 D-loop; other site 224914007516 H-loop/switch region; other site 224914007517 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 224914007518 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 224914007519 Walker A/P-loop; other site 224914007520 ATP binding site [chemical binding]; other site 224914007521 Q-loop/lid; other site 224914007522 ABC transporter signature motif; other site 224914007523 Walker B; other site 224914007524 D-loop; other site 224914007525 H-loop/switch region; other site 224914007526 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 224914007527 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 224914007528 putative ligand binding site [chemical binding]; other site 224914007529 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224914007530 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224914007531 LysR substrate binding domain; Region: LysR_substrate; pfam03466 224914007532 dimerization interface [polypeptide binding]; other site 224914007533 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 224914007534 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 224914007535 AsnC family; Region: AsnC_trans_reg; pfam01037 224914007536 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 224914007537 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 224914007538 active site 224914007539 substrate binding site [chemical binding]; other site 224914007540 ATP binding site [chemical binding]; other site 224914007541 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 224914007542 Peptidase family M23; Region: Peptidase_M23; pfam01551 224914007543 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 224914007544 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 224914007545 inhibitor-cofactor binding pocket; inhibition site 224914007546 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914007547 catalytic residue [active] 224914007548 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 224914007549 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 224914007550 substrate binding pocket [chemical binding]; other site 224914007551 membrane-bound complex binding site; other site 224914007552 hinge residues; other site 224914007553 D-aminopeptidase; Reviewed; Region: PRK13128 224914007554 Beta-lactamase; Region: Beta-lactamase; pfam00144 224914007555 D-aminopeptidase, domain B; Region: DAP_B; pfam07930 224914007556 D-aminopeptidase, domain C; Region: DAP_C; pfam07932 224914007557 thiamine pyrophosphate protein; Validated; Region: PRK08199 224914007558 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 224914007559 PYR/PP interface [polypeptide binding]; other site 224914007560 dimer interface [polypeptide binding]; other site 224914007561 TPP binding site [chemical binding]; other site 224914007562 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 224914007563 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 224914007564 TPP-binding site [chemical binding]; other site 224914007565 Transcriptional regulators [Transcription]; Region: FadR; COG2186 224914007566 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224914007567 DNA-binding site [nucleotide binding]; DNA binding site 224914007568 FCD domain; Region: FCD; pfam07729 224914007569 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 224914007570 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 224914007571 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 224914007572 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 224914007573 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 224914007574 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 224914007575 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 224914007576 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 224914007577 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 224914007578 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 224914007579 active site 224914007580 intersubunit interface [polypeptide binding]; other site 224914007581 catalytic residue [active] 224914007582 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 224914007583 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 224914007584 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 224914007585 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 224914007586 putative ligand binding site [chemical binding]; other site 224914007587 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 224914007588 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 224914007589 Walker A/P-loop; other site 224914007590 ATP binding site [chemical binding]; other site 224914007591 Q-loop/lid; other site 224914007592 ABC transporter signature motif; other site 224914007593 Walker B; other site 224914007594 D-loop; other site 224914007595 H-loop/switch region; other site 224914007596 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 224914007597 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 224914007598 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 224914007599 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 224914007600 TM-ABC transporter signature motif; other site 224914007601 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 224914007602 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 224914007603 homodimer interface [polypeptide binding]; other site 224914007604 substrate-cofactor binding pocket; other site 224914007605 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914007606 catalytic residue [active] 224914007607 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3758 224914007608 urocanate hydratase; Provisional; Region: PRK05414 224914007609 N-formylglutamate amidohydrolase; Region: hutG_amidohyd; TIGR02017 224914007610 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 224914007611 tetramer interface [polypeptide binding]; other site 224914007612 imidazolonepropionase; Validated; Region: PRK09356 224914007613 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 224914007614 active site 224914007615 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 224914007616 active sites [active] 224914007617 formiminoglutamate deiminase; Region: hutF; TIGR02022 224914007618 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 224914007619 active site 224914007620 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 224914007621 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224914007622 DNA-binding site [nucleotide binding]; DNA binding site 224914007623 UTRA domain; Region: UTRA; pfam07702 224914007624 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 224914007625 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 224914007626 inhibitor-cofactor binding pocket; inhibition site 224914007627 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914007628 catalytic residue [active] 224914007629 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 224914007630 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 224914007631 non-specific DNA binding site [nucleotide binding]; other site 224914007632 salt bridge; other site 224914007633 sequence-specific DNA binding site [nucleotide binding]; other site 224914007634 Cupin domain; Region: Cupin_2; pfam07883 224914007635 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 224914007636 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 224914007637 hydroxyglutarate oxidase; Provisional; Region: PRK11728 224914007638 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 224914007639 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 224914007640 active site 224914007641 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 224914007642 dimer interface [polypeptide binding]; other site 224914007643 substrate binding site [chemical binding]; other site 224914007644 catalytic residues [active] 224914007645 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 224914007646 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 224914007647 putative DNA binding site [nucleotide binding]; other site 224914007648 putative Zn2+ binding site [ion binding]; other site 224914007649 AsnC family; Region: AsnC_trans_reg; pfam01037 224914007650 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 224914007651 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 224914007652 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 224914007653 phosphate binding site [ion binding]; other site 224914007654 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 224914007655 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 224914007656 putative molybdopterin cofactor binding site [chemical binding]; other site 224914007657 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 224914007658 putative molybdopterin cofactor binding site; other site 224914007659 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 224914007660 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 224914007661 HlyD family secretion protein; Region: HlyD_3; pfam13437 224914007662 putative membrane fusion protein; Region: TIGR02828 224914007663 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 224914007664 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 224914007665 HlyD family secretion protein; Region: HlyD_3; pfam13437 224914007666 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 224914007667 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 224914007668 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224914007669 DNA-binding site [nucleotide binding]; DNA binding site 224914007670 UTRA domain; Region: UTRA; pfam07702 224914007671 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 224914007672 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 224914007673 dimer interface [polypeptide binding]; other site 224914007674 active site 224914007675 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 224914007676 dimer interface [polypeptide binding]; other site 224914007677 active site 224914007678 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 224914007679 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 224914007680 active site 224914007681 dimer interface [polypeptide binding]; other site 224914007682 hypothetical protein; Provisional; Region: PRK02947 224914007683 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 224914007684 putative active site [active] 224914007685 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 224914007686 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 224914007687 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 224914007688 putative active site [active] 224914007689 putative substrate binding site [chemical binding]; other site 224914007690 putative cosubstrate binding site; other site 224914007691 catalytic site [active] 224914007692 aldehyde dehydrogenase family 7 member; Region: PLN02315 224914007693 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 224914007694 tetrameric interface [polypeptide binding]; other site 224914007695 NAD binding site [chemical binding]; other site 224914007696 catalytic residues [active] 224914007697 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 224914007698 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 224914007699 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224914007700 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 224914007701 dimerization interface [polypeptide binding]; other site 224914007702 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 224914007703 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 224914007704 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 224914007705 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 224914007706 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 224914007707 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 224914007708 RNA binding site [nucleotide binding]; other site 224914007709 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 224914007710 dimerization interface [polypeptide binding]; other site 224914007711 putative DNA binding site [nucleotide binding]; other site 224914007712 putative Zn2+ binding site [ion binding]; other site 224914007713 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 224914007714 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 224914007715 FMN binding site [chemical binding]; other site 224914007716 active site 224914007717 substrate binding site [chemical binding]; other site 224914007718 catalytic residue [active] 224914007719 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 224914007720 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 224914007721 AsnC family; Region: AsnC_trans_reg; pfam01037 224914007722 Arginase family; Region: Arginase; cd09989 224914007723 agmatinase; Region: agmatinase; TIGR01230 224914007724 active site 224914007725 Mn binding site [ion binding]; other site 224914007726 oligomer interface [polypeptide binding]; other site 224914007727 ornithine cyclodeaminase; Validated; Region: PRK07589 224914007728 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 224914007729 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 224914007730 apolar tunnel; other site 224914007731 heme binding site [chemical binding]; other site 224914007732 dimerization interface [polypeptide binding]; other site 224914007733 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 224914007734 putative deacylase active site [active] 224914007735 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 224914007736 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 224914007737 catalytic residues [active] 224914007738 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 224914007739 Uncharacterized conserved protein [Function unknown]; Region: COG2835 224914007740 tartrate dehydrogenase; Region: TTC; TIGR02089 224914007741 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 224914007742 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 224914007743 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 224914007744 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 224914007745 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 224914007746 DNA binding site [nucleotide binding] 224914007747 active site 224914007748 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 224914007749 putative substrate translocation pore; other site 224914007750 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 224914007751 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 224914007752 Transcriptional regulators [Transcription]; Region: MarR; COG1846 224914007753 MarR family; Region: MarR; pfam01047 224914007754 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 224914007755 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 224914007756 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 224914007757 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 224914007758 substrate binding site [chemical binding]; other site 224914007759 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 224914007760 Uncharacterized conserved small protein [Function unknown]; Region: COG5515 224914007761 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_5; cd07238 224914007762 dimer interface [polypeptide binding]; other site 224914007763 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 224914007764 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 224914007765 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 224914007766 active site 224914007767 Zn binding site [ion binding]; other site 224914007768 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 224914007769 MgtE intracellular N domain; Region: MgtE_N; pfam03448 224914007770 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 224914007771 Divalent cation transporter; Region: MgtE; pfam01769 224914007772 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 224914007773 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 224914007774 G1 box; other site 224914007775 putative GEF interaction site [polypeptide binding]; other site 224914007776 GTP/Mg2+ binding site [chemical binding]; other site 224914007777 Switch I region; other site 224914007778 G2 box; other site 224914007779 G3 box; other site 224914007780 Switch II region; other site 224914007781 G4 box; other site 224914007782 G5 box; other site 224914007783 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 224914007784 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 224914007785 Uncharacterized conserved protein [Function unknown]; Region: COG1739 224914007786 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 224914007787 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 224914007788 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 224914007789 AMP binding site [chemical binding]; other site 224914007790 metal binding site [ion binding]; metal-binding site 224914007791 active site 224914007792 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 224914007793 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 224914007794 intersubunit interface [polypeptide binding]; other site 224914007795 active site 224914007796 zinc binding site [ion binding]; other site 224914007797 Na+ binding site [ion binding]; other site 224914007798 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 224914007799 triosephosphate isomerase; Provisional; Region: PRK14565 224914007800 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 224914007801 substrate binding site [chemical binding]; other site 224914007802 dimer interface [polypeptide binding]; other site 224914007803 catalytic triad [active] 224914007804 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 224914007805 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 224914007806 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 224914007807 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 224914007808 PCI domain; Region: PCI; cl02111 224914007809 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 224914007810 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 224914007811 glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK13369 224914007812 hydroxyglutarate oxidase; Provisional; Region: PRK11728 224914007813 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 224914007814 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 224914007815 putative N- and C-terminal domain interface [polypeptide binding]; other site 224914007816 putative active site [active] 224914007817 MgATP binding site [chemical binding]; other site 224914007818 catalytic site [active] 224914007819 metal binding site [ion binding]; metal-binding site 224914007820 putative xylulose binding site [chemical binding]; other site 224914007821 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5618 224914007822 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 224914007823 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 224914007824 Walker A/P-loop; other site 224914007825 ATP binding site [chemical binding]; other site 224914007826 Q-loop/lid; other site 224914007827 ABC transporter signature motif; other site 224914007828 Walker B; other site 224914007829 D-loop; other site 224914007830 H-loop/switch region; other site 224914007831 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 224914007832 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 224914007833 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 224914007834 TM-ABC transporter signature motif; other site 224914007835 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 224914007836 ligand binding site [chemical binding]; other site 224914007837 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 224914007838 dimerization interface [polypeptide binding]; other site 224914007839 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 224914007840 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 224914007841 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 224914007842 hypothetical protein; Validated; Region: PRK08238 224914007843 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 224914007844 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 224914007845 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 224914007846 FAD binding domain; Region: FAD_binding_4; pfam01565 224914007847 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 224914007848 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 224914007849 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 224914007850 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 224914007851 NAD(P) binding site [chemical binding]; other site 224914007852 active site 224914007853 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 224914007854 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 224914007855 inhibitor-cofactor binding pocket; inhibition site 224914007856 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914007857 catalytic residue [active] 224914007858 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 224914007859 Protein of unknown function DUF91; Region: DUF91; cl00709 224914007860 Uncharacterized conserved protein [Function unknown]; Region: COG3586 224914007861 Protein of unknown function DUF45; Region: DUF45; pfam01863 224914007862 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 224914007863 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 224914007864 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 224914007865 ATP binding site [chemical binding]; other site 224914007866 putative Mg++ binding site [ion binding]; other site 224914007867 helicase superfamily c-terminal domain; Region: HELICc; smart00490 224914007868 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 224914007869 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 224914007870 HsdM N-terminal domain; Region: HsdM_N; pfam12161 224914007871 Methyltransferase domain; Region: Methyltransf_26; pfam13659 224914007872 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 224914007873 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 224914007874 Uncharacterized phage-associated protein [Function unknown]; Region: GepA; COG3600 224914007875 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 224914007876 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 224914007877 FMN binding site [chemical binding]; other site 224914007878 substrate binding site [chemical binding]; other site 224914007879 putative catalytic residue [active] 224914007880 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 224914007881 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 224914007882 ATP binding site [chemical binding]; other site 224914007883 putative Mg++ binding site [ion binding]; other site 224914007884 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 224914007885 nucleotide binding region [chemical binding]; other site 224914007886 ATP-binding site [chemical binding]; other site 224914007887 DEAD/H associated; Region: DEAD_assoc; pfam08494 224914007888 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 224914007889 putative active site [active] 224914007890 putative metal binding site [ion binding]; other site 224914007891 conserved hypothetical protein; Region: alph_Pro_TM; TIGR02186 224914007892 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 224914007893 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 224914007894 Sel1-like repeats; Region: SEL1; smart00671 224914007895 Sel1-like repeats; Region: SEL1; smart00671 224914007896 Sel1-like repeats; Region: SEL1; smart00671 224914007897 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 224914007898 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 224914007899 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 224914007900 DNA binding residues [nucleotide binding] 224914007901 putative dimer interface [polypeptide binding]; other site 224914007902 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 224914007903 camphor resistance protein CrcB; Provisional; Region: PRK14225 224914007904 camphor resistance protein CrcB; Provisional; Region: PRK14233 224914007905 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 224914007906 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 224914007907 HlyD family secretion protein; Region: HlyD_3; pfam13437 224914007908 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 224914007909 mannonate dehydratase; Region: uxuA; TIGR00695 224914007910 mannonate dehydratase; Provisional; Region: PRK03906 224914007911 Transcriptional regulators [Transcription]; Region: GntR; COG1802 224914007912 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224914007913 DNA-binding site [nucleotide binding]; DNA binding site 224914007914 FCD domain; Region: FCD; pfam07729 224914007915 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 224914007916 glucuronate isomerase; Reviewed; Region: PRK02925 224914007917 Glucuronate isomerase; Region: UxaC; cl00829 224914007918 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 224914007919 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 224914007920 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 224914007921 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 224914007922 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 224914007923 hypothetical protein; Provisional; Region: PRK11622 224914007924 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 224914007925 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224914007926 Walker A/P-loop; other site 224914007927 ATP binding site [chemical binding]; other site 224914007928 Q-loop/lid; other site 224914007929 ABC transporter signature motif; other site 224914007930 Walker B; other site 224914007931 D-loop; other site 224914007932 H-loop/switch region; other site 224914007933 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 224914007934 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914007935 putative PBP binding loops; other site 224914007936 ABC-ATPase subunit interface; other site 224914007937 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 224914007938 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914007939 dimer interface [polypeptide binding]; other site 224914007940 conserved gate region; other site 224914007941 putative PBP binding loops; other site 224914007942 ABC-ATPase subunit interface; other site 224914007943 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 224914007944 nickel responsive regulator; Provisional; Region: PRK02967 224914007945 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 224914007946 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 224914007947 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 224914007948 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 224914007949 substrate binding site [chemical binding]; other site 224914007950 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914007951 dimer interface [polypeptide binding]; other site 224914007952 conserved gate region; other site 224914007953 putative PBP binding loops; other site 224914007954 ABC-ATPase subunit interface; other site 224914007955 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 224914007956 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914007957 dimer interface [polypeptide binding]; other site 224914007958 conserved gate region; other site 224914007959 putative PBP binding loops; other site 224914007960 ABC-ATPase subunit interface; other site 224914007961 nickel transporter ATP-binding protein NikD; Provisional; Region: nikD; PRK10418 224914007962 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 224914007963 Walker A/P-loop; other site 224914007964 ATP binding site [chemical binding]; other site 224914007965 Q-loop/lid; other site 224914007966 ABC transporter signature motif; other site 224914007967 Walker B; other site 224914007968 D-loop; other site 224914007969 H-loop/switch region; other site 224914007970 nickel transporter ATP-binding protein NikE; Provisional; Region: nikE; PRK10419 224914007971 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 224914007972 Walker A/P-loop; other site 224914007973 ATP binding site [chemical binding]; other site 224914007974 Q-loop/lid; other site 224914007975 ABC transporter signature motif; other site 224914007976 Walker B; other site 224914007977 D-loop; other site 224914007978 H-loop/switch region; other site 224914007979 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 224914007980 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 224914007981 active site 224914007982 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224914007983 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 224914007984 putative dimerization interface [polypeptide binding]; other site 224914007985 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 224914007986 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 224914007987 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 224914007988 FAD binding site [chemical binding]; other site 224914007989 substrate binding site [chemical binding]; other site 224914007990 catalytic residues [active] 224914007991 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 224914007992 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 224914007993 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 224914007994 dimer interface [polypeptide binding]; other site 224914007995 active site 224914007996 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 224914007997 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 224914007998 substrate binding site [chemical binding]; other site 224914007999 oxyanion hole (OAH) forming residues; other site 224914008000 trimer interface [polypeptide binding]; other site 224914008001 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 224914008002 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 224914008003 Predicted transcriptional regulator [Transcription]; Region: COG2932 224914008004 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 224914008005 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 224914008006 Catalytic site [active] 224914008007 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 224914008008 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 224914008009 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 224914008010 active site 224914008011 nucleotide binding site [chemical binding]; other site 224914008012 HIGH motif; other site 224914008013 KMSKS motif; other site 224914008014 tellurite resistance protein terB; Region: terB; cd07176 224914008015 putative metal binding site [ion binding]; other site 224914008016 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 224914008017 active site clefts [active] 224914008018 zinc binding site [ion binding]; other site 224914008019 dimer interface [polypeptide binding]; other site 224914008020 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 224914008021 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_13; cd08517 224914008022 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 224914008023 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914008024 dimer interface [polypeptide binding]; other site 224914008025 conserved gate region; other site 224914008026 putative PBP binding loops; other site 224914008027 ABC-ATPase subunit interface; other site 224914008028 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 224914008029 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914008030 dimer interface [polypeptide binding]; other site 224914008031 conserved gate region; other site 224914008032 putative PBP binding loops; other site 224914008033 ABC-ATPase subunit interface; other site 224914008034 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 224914008035 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 224914008036 Walker A/P-loop; other site 224914008037 ATP binding site [chemical binding]; other site 224914008038 Q-loop/lid; other site 224914008039 ABC transporter signature motif; other site 224914008040 Walker B; other site 224914008041 D-loop; other site 224914008042 H-loop/switch region; other site 224914008043 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 224914008044 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 224914008045 Walker A/P-loop; other site 224914008046 ATP binding site [chemical binding]; other site 224914008047 Q-loop/lid; other site 224914008048 ABC transporter signature motif; other site 224914008049 Walker B; other site 224914008050 D-loop; other site 224914008051 H-loop/switch region; other site 224914008052 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 224914008053 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 224914008054 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 224914008055 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 224914008056 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 224914008057 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 224914008058 homodimer interface [polypeptide binding]; other site 224914008059 NADP binding site [chemical binding]; other site 224914008060 substrate binding site [chemical binding]; other site 224914008061 phosphogluconate dehydratase; Validated; Region: PRK09054 224914008062 6-phosphogluconate dehydratase; Region: edd; TIGR01196 224914008063 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 224914008064 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 224914008065 putative active site [active] 224914008066 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 224914008067 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 224914008068 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 224914008069 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 224914008070 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 224914008071 putative NAD(P) binding site [chemical binding]; other site 224914008072 active site 224914008073 drug efflux system protein MdtG; Provisional; Region: PRK09874 224914008074 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 224914008075 putative substrate translocation pore; other site 224914008076 Predicted membrane protein [Function unknown]; Region: COG4541 224914008077 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 224914008078 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 224914008079 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 224914008080 putative DNA binding site [nucleotide binding]; other site 224914008081 putative Zn2+ binding site [ion binding]; other site 224914008082 AsnC family; Region: AsnC_trans_reg; pfam01037 224914008083 Hint domain; Region: Hint_2; pfam13403 224914008084 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 224914008085 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 224914008086 hypothetical protein; Reviewed; Region: PRK12275 224914008087 four helix bundle protein; Region: TIGR02436 224914008088 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 224914008089 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 224914008090 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 224914008091 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224914008092 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224914008093 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 224914008094 dimerization interface [polypeptide binding]; other site 224914008095 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 224914008096 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 224914008097 generic binding surface II; other site 224914008098 generic binding surface I; other site 224914008099 Gamma-glutamylcysteine synthetase [Coenzyme metabolism]; Region: GshA; COG3572 224914008100 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 224914008101 RNA methyltransferase, RsmE family; Region: TIGR00046 224914008102 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 224914008103 MarR family; Region: MarR_2; pfam12802 224914008104 Fusaric acid resistance protein family; Region: FUSC; pfam04632 224914008105 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 224914008106 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 224914008107 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 224914008108 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 224914008109 HlyD family secretion protein; Region: HlyD_3; pfam13437 224914008110 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 224914008111 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 224914008112 putative ligand binding residues [chemical binding]; other site 224914008113 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 224914008114 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 224914008115 ABC-ATPase subunit interface; other site 224914008116 dimer interface [polypeptide binding]; other site 224914008117 putative PBP binding regions; other site 224914008118 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 224914008119 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 224914008120 Walker A/P-loop; other site 224914008121 ATP binding site [chemical binding]; other site 224914008122 Q-loop/lid; other site 224914008123 ABC transporter signature motif; other site 224914008124 Walker B; other site 224914008125 D-loop; other site 224914008126 H-loop/switch region; other site 224914008127 Uncharacterized conserved protein [Function unknown]; Region: COG5476 224914008128 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 224914008129 MlrC C-terminus; Region: MlrC_C; pfam07171 224914008130 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 224914008131 homotrimer interaction site [polypeptide binding]; other site 224914008132 putative active site [active] 224914008133 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 224914008134 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914008135 dimer interface [polypeptide binding]; other site 224914008136 conserved gate region; other site 224914008137 putative PBP binding loops; other site 224914008138 ABC-ATPase subunit interface; other site 224914008139 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 224914008140 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 224914008141 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 224914008142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 224914008143 NAD(P) binding site [chemical binding]; other site 224914008144 active site 224914008145 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 224914008146 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 224914008147 Walker A/P-loop; other site 224914008148 ATP binding site [chemical binding]; other site 224914008149 Q-loop/lid; other site 224914008150 ABC transporter signature motif; other site 224914008151 Walker B; other site 224914008152 D-loop; other site 224914008153 H-loop/switch region; other site 224914008154 TOBE domain; Region: TOBE; pfam03459 224914008155 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 224914008156 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 224914008157 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 224914008158 putative active site [active] 224914008159 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 224914008160 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like; Region: PLPDE_III_LS_D-TA_like; cd06820 224914008161 dimer interface [polypeptide binding]; other site 224914008162 active site 224914008163 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 224914008164 substrate binding site [chemical binding]; other site 224914008165 catalytic residue [active] 224914008166 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 224914008167 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 224914008168 Walker A/P-loop; other site 224914008169 ATP binding site [chemical binding]; other site 224914008170 Q-loop/lid; other site 224914008171 ABC transporter signature motif; other site 224914008172 Walker B; other site 224914008173 D-loop; other site 224914008174 H-loop/switch region; other site 224914008175 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 224914008176 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914008177 dimer interface [polypeptide binding]; other site 224914008178 conserved gate region; other site 224914008179 putative PBP binding loops; other site 224914008180 ABC-ATPase subunit interface; other site 224914008181 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 224914008182 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 224914008183 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 224914008184 EamA-like transporter family; Region: EamA; pfam00892 224914008185 BA14K-like protein; Region: BA14K; pfam07886 224914008186 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 224914008187 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 224914008188 putative active site [active] 224914008189 metal binding site [ion binding]; metal-binding site 224914008190 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 224914008191 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 224914008192 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 224914008193 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 224914008194 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 224914008195 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 224914008196 putative active site [active] 224914008197 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 224914008198 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 224914008199 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 224914008200 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 224914008201 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 224914008202 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 224914008203 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 224914008204 lipoyl attachment site [posttranslational modification]; other site 224914008205 glycine dehydrogenase; Provisional; Region: PRK05367 224914008206 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 224914008207 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 224914008208 catalytic residue [active] 224914008209 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 224914008210 tetramer interface [polypeptide binding]; other site 224914008211 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914008212 catalytic residue [active] 224914008213 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 224914008214 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 224914008215 putative DNA binding site [nucleotide binding]; other site 224914008216 putative Zn2+ binding site [ion binding]; other site 224914008217 AsnC family; Region: AsnC_trans_reg; pfam01037 224914008218 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 224914008219 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 224914008220 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 224914008221 Glutamate binding site [chemical binding]; other site 224914008222 NAD binding site [chemical binding]; other site 224914008223 catalytic residues [active] 224914008224 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 224914008225 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 224914008226 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 224914008227 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914008228 dimer interface [polypeptide binding]; other site 224914008229 conserved gate region; other site 224914008230 putative PBP binding loops; other site 224914008231 ABC-ATPase subunit interface; other site 224914008232 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914008233 dimer interface [polypeptide binding]; other site 224914008234 conserved gate region; other site 224914008235 putative PBP binding loops; other site 224914008236 ABC-ATPase subunit interface; other site 224914008237 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 224914008238 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224914008239 Walker A/P-loop; other site 224914008240 ATP binding site [chemical binding]; other site 224914008241 Q-loop/lid; other site 224914008242 ABC transporter signature motif; other site 224914008243 Walker B; other site 224914008244 D-loop; other site 224914008245 H-loop/switch region; other site 224914008246 TOBE domain; Region: TOBE_2; pfam08402 224914008247 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 224914008248 Bacterial family of Mg++ dependent phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate inositol monophosphate or similar substrates; Region: Bacterial_IMPase_like_2; cd01643 224914008249 active site 224914008250 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 224914008251 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 224914008252 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 224914008253 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 224914008254 PYR/PP interface [polypeptide binding]; other site 224914008255 dimer interface [polypeptide binding]; other site 224914008256 TPP binding site [chemical binding]; other site 224914008257 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 224914008258 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 224914008259 TPP-binding site [chemical binding]; other site 224914008260 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 224914008261 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 224914008262 substrate binding site [chemical binding]; other site 224914008263 ATP binding site [chemical binding]; other site 224914008264 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 224914008265 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 224914008266 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 224914008267 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 224914008268 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 224914008269 putative active site [active] 224914008270 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 224914008271 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 224914008272 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 224914008273 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 224914008274 HTH DNA binding domain; Region: HTH_13; pfam11972 224914008275 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 224914008276 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224914008277 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 224914008278 dimerization interface [polypeptide binding]; other site 224914008279 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 224914008280 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 224914008281 dimer interface [polypeptide binding]; other site 224914008282 decamer (pentamer of dimers) interface [polypeptide binding]; other site 224914008283 catalytic triad [active] 224914008284 peroxidatic and resolving cysteines [active] 224914008285 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 224914008286 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 224914008287 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 224914008288 metabolite-proton symporter; Region: 2A0106; TIGR00883 224914008289 putative substrate translocation pore; other site 224914008290 multicopper oxidase; Provisional; Region: PRK10965 224914008291 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 224914008292 Multicopper oxidase; Region: Cu-oxidase; pfam00394 224914008293 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 224914008294 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 224914008295 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 224914008296 E-class dimer interface [polypeptide binding]; other site 224914008297 P-class dimer interface [polypeptide binding]; other site 224914008298 active site 224914008299 Cu2+ binding site [ion binding]; other site 224914008300 Zn2+ binding site [ion binding]; other site 224914008301 FAD dependent oxidoreductase; Region: DAO; pfam01266 224914008302 hydroxyglutarate oxidase; Provisional; Region: PRK11728 224914008303 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 224914008304 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 224914008305 Walker A/P-loop; other site 224914008306 ATP binding site [chemical binding]; other site 224914008307 Q-loop/lid; other site 224914008308 ABC transporter signature motif; other site 224914008309 Walker B; other site 224914008310 D-loop; other site 224914008311 H-loop/switch region; other site 224914008312 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 224914008313 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 224914008314 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 224914008315 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914008316 dimer interface [polypeptide binding]; other site 224914008317 conserved gate region; other site 224914008318 putative PBP binding loops; other site 224914008319 ABC-ATPase subunit interface; other site 224914008320 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3453 224914008321 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 224914008322 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-II; Region: Lumazine_synthase-II; cd09208 224914008323 active site 224914008324 homopentamer interface [polypeptide binding]; other site 224914008325 dimer interface [polypeptide binding]; other site 224914008326 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 224914008327 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 224914008328 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914008329 dimer interface [polypeptide binding]; other site 224914008330 conserved gate region; other site 224914008331 putative PBP binding loops; other site 224914008332 ABC-ATPase subunit interface; other site 224914008333 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 224914008334 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914008335 dimer interface [polypeptide binding]; other site 224914008336 conserved gate region; other site 224914008337 putative PBP binding loops; other site 224914008338 ABC-ATPase subunit interface; other site 224914008339 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 224914008340 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 224914008341 Walker A/P-loop; other site 224914008342 ATP binding site [chemical binding]; other site 224914008343 Q-loop/lid; other site 224914008344 ABC transporter signature motif; other site 224914008345 Walker B; other site 224914008346 D-loop; other site 224914008347 H-loop/switch region; other site 224914008348 TOBE domain; Region: TOBE_2; pfam08402 224914008349 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 224914008350 putative transporter; Provisional; Region: PRK10504 224914008351 putative substrate translocation pore; other site 224914008352 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 224914008353 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 224914008354 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 224914008355 S-adenosylmethionine binding site [chemical binding]; other site 224914008356 exopolyphosphatase; Region: exo_poly_only; TIGR03706 224914008357 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 224914008358 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 224914008359 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224914008360 Walker A/P-loop; other site 224914008361 ATP binding site [chemical binding]; other site 224914008362 Q-loop/lid; other site 224914008363 ABC transporter signature motif; other site 224914008364 Walker B; other site 224914008365 D-loop; other site 224914008366 H-loop/switch region; other site 224914008367 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914008368 dimer interface [polypeptide binding]; other site 224914008369 conserved gate region; other site 224914008370 putative PBP binding loops; other site 224914008371 ABC-ATPase subunit interface; other site 224914008372 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 224914008373 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 224914008374 substrate binding pocket [chemical binding]; other site 224914008375 membrane-bound complex binding site; other site 224914008376 hinge residues; other site 224914008377 5-oxoprolinase; Region: PLN02666 224914008378 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 224914008379 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 224914008380 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 224914008381 Predicted transcription regulator, contains HTH domain (MarR family) [Transcription]; Region: COG5631 224914008382 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 224914008383 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 224914008384 Walker A/P-loop; other site 224914008385 ATP binding site [chemical binding]; other site 224914008386 Q-loop/lid; other site 224914008387 ABC transporter signature motif; other site 224914008388 Walker B; other site 224914008389 D-loop; other site 224914008390 H-loop/switch region; other site 224914008391 ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]; Region: CeuC; COG4605 224914008392 ABC-ATPase subunit interface; other site 224914008393 dimer interface [polypeptide binding]; other site 224914008394 putative PBP binding regions; other site 224914008395 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 224914008396 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 224914008397 ABC-ATPase subunit interface; other site 224914008398 dimer interface [polypeptide binding]; other site 224914008399 putative PBP binding regions; other site 224914008400 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 224914008401 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 224914008402 putative ligand binding residues [chemical binding]; other site 224914008403 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 224914008404 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 224914008405 NAD binding site [chemical binding]; other site 224914008406 catalytic residues [active] 224914008407 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 224914008408 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 224914008409 FAD binding domain; Region: FAD_binding_2; pfam00890 224914008410 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 224914008411 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 224914008412 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 224914008413 substrate-cofactor binding pocket; other site 224914008414 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914008415 catalytic residue [active] 224914008416 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 224914008417 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 224914008418 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 224914008419 EamA-like transporter family; Region: EamA; pfam00892 224914008420 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 224914008421 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 224914008422 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 224914008423 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 224914008424 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 224914008425 nucleoside/Zn binding site; other site 224914008426 dimer interface [polypeptide binding]; other site 224914008427 catalytic motif [active] 224914008428 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 224914008429 transmembrane helices; other site 224914008430 TrkA-C domain; Region: TrkA_C; pfam02080 224914008431 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 224914008432 TrkA-C domain; Region: TrkA_C; pfam02080 224914008433 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 224914008434 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 224914008435 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 224914008436 Walker A/P-loop; other site 224914008437 ATP binding site [chemical binding]; other site 224914008438 Q-loop/lid; other site 224914008439 ABC transporter signature motif; other site 224914008440 Walker B; other site 224914008441 D-loop; other site 224914008442 H-loop/switch region; other site 224914008443 TOBE domain; Region: TOBE_2; pfam08402 224914008444 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 224914008445 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914008446 dimer interface [polypeptide binding]; other site 224914008447 conserved gate region; other site 224914008448 ABC-ATPase subunit interface; other site 224914008449 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914008450 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 224914008451 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914008452 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 224914008453 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 224914008454 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 224914008455 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 224914008456 active site 224914008457 dimer interface [polypeptide binding]; other site 224914008458 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 224914008459 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 224914008460 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 224914008461 active site 224914008462 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 224914008463 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 224914008464 Walker A/P-loop; other site 224914008465 ATP binding site [chemical binding]; other site 224914008466 Q-loop/lid; other site 224914008467 ABC transporter signature motif; other site 224914008468 Walker B; other site 224914008469 D-loop; other site 224914008470 H-loop/switch region; other site 224914008471 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 224914008472 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 224914008473 Walker A/P-loop; other site 224914008474 ATP binding site [chemical binding]; other site 224914008475 Q-loop/lid; other site 224914008476 ABC transporter signature motif; other site 224914008477 Walker B; other site 224914008478 D-loop; other site 224914008479 H-loop/switch region; other site 224914008480 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 224914008481 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 224914008482 TM-ABC transporter signature motif; other site 224914008483 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 224914008484 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 224914008485 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 224914008486 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 224914008487 TM-ABC transporter signature motif; other site 224914008488 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 224914008489 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 224914008490 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK05975 224914008491 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 224914008492 tetramer interface [polypeptide binding]; other site 224914008493 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 224914008494 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 224914008495 heterodimer interface [polypeptide binding]; other site 224914008496 active site 224914008497 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 224914008498 active site 224914008499 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 224914008500 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 224914008501 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 224914008502 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224914008503 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 224914008504 dimerization interface [polypeptide binding]; other site 224914008505 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 224914008506 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 224914008507 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 224914008508 Cupin domain; Region: Cupin_2; cl17218 224914008509 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224914008510 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 224914008511 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 224914008512 Bacterial transcriptional regulator; Region: IclR; pfam01614 224914008513 Coenzyme A transferase; Region: CoA_trans; cl17247 224914008514 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 224914008515 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 224914008516 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 224914008517 active site 224914008518 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224914008519 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 224914008520 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224914008521 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 224914008522 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 224914008523 active site 224914008524 catalytic site [active] 224914008525 substrate binding site [chemical binding]; other site 224914008526 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 224914008527 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 224914008528 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 224914008529 metal binding site [ion binding]; metal-binding site 224914008530 active site 224914008531 I-site; other site 224914008532 Uncharacterized conserved protein [Function unknown]; Region: COG3391 224914008533 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 224914008534 DNA polymerase IV; Provisional; Region: PRK02794 224914008535 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 224914008536 active site 224914008537 DNA binding site [nucleotide binding] 224914008538 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 224914008539 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 224914008540 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 224914008541 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 224914008542 active site 224914008543 phosphorylation site [posttranslational modification] 224914008544 intermolecular recognition site; other site 224914008545 dimerization interface [polypeptide binding]; other site 224914008546 response regulator PleD; Reviewed; Region: pleD; PRK09581 224914008547 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 224914008548 active site 224914008549 phosphorylation site [posttranslational modification] 224914008550 intermolecular recognition site; other site 224914008551 dimerization interface [polypeptide binding]; other site 224914008552 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 224914008553 active site 224914008554 phosphorylation site [posttranslational modification] 224914008555 intermolecular recognition site; other site 224914008556 dimerization interface [polypeptide binding]; other site 224914008557 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 224914008558 metal binding site [ion binding]; metal-binding site 224914008559 active site 224914008560 I-site; other site 224914008561 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 224914008562 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224914008563 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 224914008564 putative substrate translocation pore; other site 224914008565 hypothetical protein; Provisional; Region: PRK05978 224914008566 ribonuclease R; Region: RNase_R; TIGR02063 224914008567 RNB domain; Region: RNB; pfam00773 224914008568 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 224914008569 RNA binding site [nucleotide binding]; other site 224914008570 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 224914008571 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 224914008572 active site 224914008573 interdomain interaction site; other site 224914008574 putative metal-binding site [ion binding]; other site 224914008575 nucleotide binding site [chemical binding]; other site 224914008576 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 224914008577 domain I; other site 224914008578 DNA binding groove [nucleotide binding] 224914008579 phosphate binding site [ion binding]; other site 224914008580 domain II; other site 224914008581 domain III; other site 224914008582 nucleotide binding site [chemical binding]; other site 224914008583 catalytic site [active] 224914008584 domain IV; other site 224914008585 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 224914008586 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 224914008587 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 224914008588 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 224914008589 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 224914008590 DNA protecting protein DprA; Region: dprA; TIGR00732 224914008591 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 224914008592 dihydroorotase; Validated; Region: PRK09059 224914008593 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 224914008594 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 224914008595 active site 224914008596 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 224914008597 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 224914008598 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 224914008599 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 224914008600 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 224914008601 active site 224914008602 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]; Region: COG0816 224914008603 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 224914008604 metal-dependent hydrolase; Provisional; Region: PRK00685 224914008605 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 224914008606 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 224914008607 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 224914008608 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 224914008609 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 224914008610 Mg2+ binding site [ion binding]; other site 224914008611 G-X-G motif; other site 224914008612 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 224914008613 anchoring element; other site 224914008614 dimer interface [polypeptide binding]; other site 224914008615 ATP binding site [chemical binding]; other site 224914008616 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 224914008617 active site 224914008618 metal binding site [ion binding]; metal-binding site 224914008619 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 224914008620 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 224914008621 EamA-like transporter family; Region: EamA; pfam00892 224914008622 lipoate-protein ligase B; Provisional; Region: PRK14341 224914008623 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 224914008624 PAS domain; Region: PAS_9; pfam13426 224914008625 putative active site [active] 224914008626 heme pocket [chemical binding]; other site 224914008627 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 224914008628 PAS fold; Region: PAS_3; pfam08447 224914008629 putative active site [active] 224914008630 heme pocket [chemical binding]; other site 224914008631 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 224914008632 HWE histidine kinase; Region: HWE_HK; pfam07536 224914008633 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 224914008634 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 224914008635 Predicted integral membrane protein [Function unknown]; Region: COG0392 224914008636 Uncharacterized conserved protein [Function unknown]; Region: COG2898 224914008637 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 224914008638 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 224914008639 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 224914008640 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 224914008641 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 224914008642 Substrate binding site; other site 224914008643 Mg++ binding site; other site 224914008644 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 224914008645 active site 224914008646 substrate binding site [chemical binding]; other site 224914008647 CoA binding site [chemical binding]; other site 224914008648 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 224914008649 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 224914008650 glutaminase active site [active] 224914008651 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 224914008652 dimer interface [polypeptide binding]; other site 224914008653 active site 224914008654 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 224914008655 dimer interface [polypeptide binding]; other site 224914008656 active site 224914008657 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 224914008658 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 224914008659 generic binding surface II; other site 224914008660 ssDNA binding site; other site 224914008661 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 224914008662 ATP binding site [chemical binding]; other site 224914008663 putative Mg++ binding site [ion binding]; other site 224914008664 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 224914008665 nucleotide binding region [chemical binding]; other site 224914008666 ATP-binding site [chemical binding]; other site 224914008667 Uncharacterized conserved protein [Function unknown]; Region: COG2938 224914008668 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 224914008669 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 224914008670 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 224914008671 ATP binding site [chemical binding]; other site 224914008672 putative Mg++ binding site [ion binding]; other site 224914008673 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 224914008674 nucleotide binding region [chemical binding]; other site 224914008675 ATP-binding site [chemical binding]; other site 224914008676 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 224914008677 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 224914008678 fosfomycin resistance protein FosB; Provisional; Region: PRK04101 224914008679 active site 224914008680 metal binding site [ion binding]; metal-binding site 224914008681 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 224914008682 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 224914008683 catalytic residues [active] 224914008684 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 224914008685 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 224914008686 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 224914008687 Uncharacterized conserved protein [Function unknown]; Region: COG3785 224914008688 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 224914008689 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 224914008690 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 224914008691 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 224914008692 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 224914008693 NADP binding site [chemical binding]; other site 224914008694 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 224914008695 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 224914008696 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 224914008697 Walker A/P-loop; other site 224914008698 ATP binding site [chemical binding]; other site 224914008699 Q-loop/lid; other site 224914008700 ABC transporter signature motif; other site 224914008701 Walker B; other site 224914008702 D-loop; other site 224914008703 H-loop/switch region; other site 224914008704 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 224914008705 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 224914008706 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 224914008707 TM-ABC transporter signature motif; other site 224914008708 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4603 224914008709 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 224914008710 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 224914008711 TM-ABC transporter signature motif; other site 224914008712 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 224914008713 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 224914008714 putative ligand binding site [chemical binding]; other site 224914008715 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 224914008716 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 224914008717 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 224914008718 FeS/SAM binding site; other site 224914008719 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 224914008720 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 224914008721 heme binding site [chemical binding]; other site 224914008722 ferroxidase pore; other site 224914008723 ferroxidase diiron center [ion binding]; other site 224914008724 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 224914008725 iron-responsive transcriptional regulator; Reviewed; Region: rirA; PRK11920 224914008726 Predicted transcriptional regulator [Transcription]; Region: COG1959 224914008727 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 224914008728 putative deacylase active site [active] 224914008729 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 224914008730 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 224914008731 Transposase; Region: HTH_Tnp_1; pfam01527 224914008732 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 224914008733 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 224914008734 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 224914008735 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 224914008736 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 224914008737 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 224914008738 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 224914008739 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 224914008740 yecA family protein; Region: ygfB_yecA; TIGR02292 224914008741 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 224914008742 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 224914008743 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 224914008744 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 224914008745 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 224914008746 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224914008747 Protein of unknown function (DUF995); Region: DUF995; pfam06191 224914008748 Beta-mannanase [Carbohydrate transport and metabolism]; Region: ManB; COG4124 224914008749 Protein of unknown function (DUF995); Region: DUF995; pfam06191 224914008750 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 224914008751 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 224914008752 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 224914008753 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 224914008754 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 224914008755 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 224914008756 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 224914008757 active site 224914008758 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 224914008759 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 224914008760 NAD binding site [chemical binding]; other site 224914008761 homodimer interface [polypeptide binding]; other site 224914008762 active site 224914008763 substrate binding site [chemical binding]; other site 224914008764 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 224914008765 Predicted integral membrane protein [Function unknown]; Region: COG5455 224914008766 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 224914008767 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 224914008768 peptide binding site [polypeptide binding]; other site 224914008769 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 224914008770 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 224914008771 peptide binding site [polypeptide binding]; other site 224914008772 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 224914008773 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914008774 dimer interface [polypeptide binding]; other site 224914008775 conserved gate region; other site 224914008776 putative PBP binding loops; other site 224914008777 ABC-ATPase subunit interface; other site 224914008778 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 224914008779 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914008780 dimer interface [polypeptide binding]; other site 224914008781 conserved gate region; other site 224914008782 ABC-ATPase subunit interface; other site 224914008783 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 224914008784 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 224914008785 Walker A/P-loop; other site 224914008786 ATP binding site [chemical binding]; other site 224914008787 Q-loop/lid; other site 224914008788 ABC transporter signature motif; other site 224914008789 Walker B; other site 224914008790 D-loop; other site 224914008791 H-loop/switch region; other site 224914008792 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 224914008793 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 224914008794 Walker A/P-loop; other site 224914008795 ATP binding site [chemical binding]; other site 224914008796 Q-loop/lid; other site 224914008797 ABC transporter signature motif; other site 224914008798 Walker B; other site 224914008799 D-loop; other site 224914008800 H-loop/switch region; other site 224914008801 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 224914008802 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 224914008803 benzoate transport; Region: 2A0115; TIGR00895 224914008804 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 224914008805 putative substrate translocation pore; other site 224914008806 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 224914008807 homodimer interface [polypeptide binding]; other site 224914008808 homotetramer interface [polypeptide binding]; other site 224914008809 active site pocket [active] 224914008810 cleavage site 224914008811 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 224914008812 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 224914008813 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 224914008814 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 224914008815 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 224914008816 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 224914008817 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 224914008818 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 224914008819 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 224914008820 E3 interaction surface; other site 224914008821 lipoyl attachment site [posttranslational modification]; other site 224914008822 e3 binding domain; Region: E3_binding; pfam02817 224914008823 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 224914008824 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 224914008825 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 224914008826 alpha subunit interface [polypeptide binding]; other site 224914008827 TPP binding site [chemical binding]; other site 224914008828 heterodimer interface [polypeptide binding]; other site 224914008829 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 224914008830 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 224914008831 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 224914008832 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 224914008833 tetramer interface [polypeptide binding]; other site 224914008834 TPP-binding site [chemical binding]; other site 224914008835 heterodimer interface [polypeptide binding]; other site 224914008836 phosphorylation loop region [posttranslational modification] 224914008837 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 224914008838 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 224914008839 Walker A/P-loop; other site 224914008840 ATP binding site [chemical binding]; other site 224914008841 Q-loop/lid; other site 224914008842 ABC transporter signature motif; other site 224914008843 Walker B; other site 224914008844 D-loop; other site 224914008845 H-loop/switch region; other site 224914008846 TOBE domain; Region: TOBE_2; pfam08402 224914008847 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 224914008848 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 224914008849 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 224914008850 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914008851 dimer interface [polypeptide binding]; other site 224914008852 conserved gate region; other site 224914008853 putative PBP binding loops; other site 224914008854 ABC-ATPase subunit interface; other site 224914008855 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 224914008856 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914008857 dimer interface [polypeptide binding]; other site 224914008858 conserved gate region; other site 224914008859 putative PBP binding loops; other site 224914008860 ABC-ATPase subunit interface; other site 224914008861 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 224914008862 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 224914008863 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 224914008864 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 224914008865 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 224914008866 nucleotide binding site [chemical binding]; other site 224914008867 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 224914008868 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224914008869 DNA-binding site [nucleotide binding]; DNA binding site 224914008870 UTRA domain; Region: UTRA; pfam07702 224914008871 Predicted outer membrane lipoprotein [Function unknown]; Region: COG4890 224914008872 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 224914008873 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 224914008874 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 224914008875 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 224914008876 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 224914008877 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224914008878 Walker A/P-loop; other site 224914008879 ATP binding site [chemical binding]; other site 224914008880 Q-loop/lid; other site 224914008881 ABC transporter signature motif; other site 224914008882 Walker B; other site 224914008883 D-loop; other site 224914008884 H-loop/switch region; other site 224914008885 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 224914008886 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 224914008887 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 224914008888 Walker A/P-loop; other site 224914008889 ATP binding site [chemical binding]; other site 224914008890 Q-loop/lid; other site 224914008891 ABC transporter signature motif; other site 224914008892 Walker B; other site 224914008893 D-loop; other site 224914008894 H-loop/switch region; other site 224914008895 Predicted transcriptional regulators [Transcription]; Region: COG1510 224914008896 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 224914008897 dimerization interface [polypeptide binding]; other site 224914008898 putative DNA binding site [nucleotide binding]; other site 224914008899 putative Zn2+ binding site [ion binding]; other site 224914008900 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 224914008901 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 224914008902 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12596 224914008903 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 224914008904 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 224914008905 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 224914008906 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 224914008907 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 224914008908 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 224914008909 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 224914008910 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 224914008911 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 224914008912 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 224914008913 Nitroreductase-like family 4. 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_4; cd02140 224914008914 dimer interface [polypeptide binding]; other site 224914008915 FMN binding site [chemical binding]; other site 224914008916 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 224914008917 MPT binding site; other site 224914008918 trimer interface [polypeptide binding]; other site 224914008919 biotin synthase; Region: bioB; TIGR00433 224914008920 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 224914008921 FeS/SAM binding site; other site 224914008922 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 224914008923 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 224914008924 hypothetical protein; Provisional; Region: PRK07505 224914008925 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 224914008926 catalytic residue [active] 224914008927 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 224914008928 AAA domain; Region: AAA_26; pfam13500 224914008929 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 224914008930 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 224914008931 inhibitor-cofactor binding pocket; inhibition site 224914008932 pyridoxal 5'-phosphate binding site [chemical binding]; other site 224914008933 catalytic residue [active] 224914008934 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK05963 224914008935 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 224914008936 dimer interface [polypeptide binding]; other site 224914008937 active site 224914008938 CoA binding pocket [chemical binding]; other site 224914008939 Homoserine trans-succinylase [Amino acid transport and metabolism]; Region: MetA; COG1897 224914008940 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 224914008941 proposed active site lysine [active] 224914008942 conserved cys residue [active] 224914008943 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 224914008944 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 224914008945 active site 224914008946 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 224914008947 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 224914008948 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 224914008949 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 224914008950 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 224914008951 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 224914008952 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 224914008953 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 224914008954 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 224914008955 Uncharacterized conserved protein [Function unknown]; Region: COG3189 224914008956 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 224914008957 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 224914008958 active site 224914008959 phosphorylation site [posttranslational modification] 224914008960 intermolecular recognition site; other site 224914008961 dimerization interface [polypeptide binding]; other site 224914008962 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 224914008963 DNA binding site [nucleotide binding] 224914008964 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 224914008965 HAMP domain; Region: HAMP; pfam00672 224914008966 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 224914008967 dimer interface [polypeptide binding]; other site 224914008968 phosphorylation site [posttranslational modification] 224914008969 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 224914008970 ATP binding site [chemical binding]; other site 224914008971 Mg2+ binding site [ion binding]; other site 224914008972 G-X-G motif; other site 224914008973 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 224914008974 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 224914008975 HlyD family secretion protein; Region: HlyD_3; pfam13437 224914008976 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 224914008977 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 224914008978 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224914008979 putative substrate translocation pore; other site 224914008980 MarR family; Region: MarR_2; pfam12802 224914008981 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 224914008982 NMT1/THI5 like; Region: NMT1; pfam09084 224914008983 substrate binding pocket [chemical binding]; other site 224914008984 membrane-bound complex binding site; other site 224914008985 hinge residues; other site 224914008986 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 224914008987 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 224914008988 Walker A/P-loop; other site 224914008989 ATP binding site [chemical binding]; other site 224914008990 Q-loop/lid; other site 224914008991 ABC transporter signature motif; other site 224914008992 Walker B; other site 224914008993 D-loop; other site 224914008994 H-loop/switch region; other site 224914008995 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 224914008996 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914008997 dimer interface [polypeptide binding]; other site 224914008998 conserved gate region; other site 224914008999 putative PBP binding loops; other site 224914009000 ABC-ATPase subunit interface; other site 224914009001 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 224914009002 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 224914009003 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 224914009004 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 224914009005 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 224914009006 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 224914009007 Walker A/P-loop; other site 224914009008 ATP binding site [chemical binding]; other site 224914009009 Q-loop/lid; other site 224914009010 ABC transporter signature motif; other site 224914009011 Walker B; other site 224914009012 D-loop; other site 224914009013 H-loop/switch region; other site 224914009014 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 224914009015 HlyD family secretion protein; Region: HlyD_3; pfam13437 224914009016 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 224914009017 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 224914009018 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 224914009019 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 224914009020 Domain of unknown function DUF20; Region: UPF0118; pfam01594 224914009021 Transcriptional regulators [Transcription]; Region: GntR; COG1802 224914009022 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224914009023 DNA-binding site [nucleotide binding]; DNA binding site 224914009024 FCD domain; Region: FCD; pfam07729 224914009025 Predicted transporter component [General function prediction only]; Region: COG2391 224914009026 Sulphur transport; Region: Sulf_transp; pfam04143 224914009027 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 224914009028 Predicted transporter component [General function prediction only]; Region: COG2391 224914009029 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 224914009030 dimerization interface [polypeptide binding]; other site 224914009031 putative DNA binding site [nucleotide binding]; other site 224914009032 putative Zn2+ binding site [ion binding]; other site 224914009033 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 224914009034 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 224914009035 active site 224914009036 catalytic residues [active] 224914009037 metal binding site [ion binding]; metal-binding site 224914009038 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 224914009039 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 224914009040 ligand binding site [chemical binding]; other site 224914009041 NAD binding site [chemical binding]; other site 224914009042 tetramer interface [polypeptide binding]; other site 224914009043 catalytic site [active] 224914009044 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 224914009045 L-serine binding site [chemical binding]; other site 224914009046 ACT domain interface; other site 224914009047 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 224914009048 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 224914009049 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224914009050 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 224914009051 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_2; cd05973 224914009052 active site 224914009053 acyl-activating enzyme (AAE) consensus motif; other site 224914009054 putative CoA binding site [chemical binding]; other site 224914009055 AMP binding site [chemical binding]; other site 224914009056 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 224914009057 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 224914009058 NAD binding site [chemical binding]; other site 224914009059 homodimer interface [polypeptide binding]; other site 224914009060 homotetramer interface [polypeptide binding]; other site 224914009061 active site 224914009062 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 224914009063 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 224914009064 dimer interface [polypeptide binding]; other site 224914009065 active site 224914009066 cyclohexanecarboxyl-CoA dehydrogenase; Region: cyc_hxne_CoA_dh; TIGR03207 224914009067 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 224914009068 active site 224914009069 methionine sulfoxide reductase B; Provisional; Region: PRK00222 224914009070 SelR domain; Region: SelR; pfam01641 224914009071 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 224914009072 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224914009073 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 224914009074 putative dimerization interface [polypeptide binding]; other site 224914009075 putative substrate binding pocket [chemical binding]; other site 224914009076 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 224914009077 Major Facilitator Superfamily; Region: MFS_1; pfam07690 224914009078 putative substrate translocation pore; other site 224914009079 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 224914009080 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 224914009081 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 224914009082 nucleotide binding site [chemical binding]; other site 224914009083 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 224914009084 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 224914009085 nucleotide binding site [chemical binding]; other site 224914009086 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 224914009087 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 224914009088 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 224914009089 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 224914009090 active site 224914009091 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 224914009092 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 224914009093 Methyltransferase domain; Region: Methyltransf_23; pfam13489 224914009094 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 224914009095 S-adenosylmethionine binding site [chemical binding]; other site 224914009096 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 224914009097 Uncharacterized protein conserved in bacteria with an aminopeptidase-like domain [General function prediction only]; Region: COG4310 224914009098 M28 Zn-Peptidases; Region: M28_like_3; cd05644 224914009099 active site 224914009100 metal binding site [ion binding]; metal-binding site 224914009101 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 224914009102 extended (e) SDRs; Region: SDR_e; cd08946 224914009103 NAD(P) binding site [chemical binding]; other site 224914009104 active site 224914009105 substrate binding site [chemical binding]; other site 224914009106 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 224914009107 glutamate-1-semialdehyde 2,1-aminomutase; Provisional; Region: PRK06209 224914009108 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 224914009109 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 224914009110 catalytic residue [active] 224914009111 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 224914009112 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 224914009113 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 224914009114 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 224914009115 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 224914009116 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 224914009117 active site 224914009118 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 224914009119 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 224914009120 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 224914009121 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 224914009122 Mg++ binding site [ion binding]; other site 224914009123 putative catalytic motif [active] 224914009124 substrate binding site [chemical binding]; other site 224914009125 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 224914009126 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 224914009127 putative metal binding site; other site 224914009128 Uncharacterized conserved protein [Function unknown]; Region: COG1434 224914009129 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 224914009130 putative active site [active] 224914009131 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 224914009132 putative trimer interface [polypeptide binding]; other site 224914009133 putative active site [active] 224914009134 putative substrate binding site [chemical binding]; other site 224914009135 putative CoA binding site [chemical binding]; other site 224914009136 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 224914009137 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 224914009138 putative ADP-binding pocket [chemical binding]; other site 224914009139 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 224914009140 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 224914009141 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 224914009142 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 224914009143 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 224914009144 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 224914009145 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 224914009146 NADP-binding site; other site 224914009147 homotetramer interface [polypeptide binding]; other site 224914009148 substrate binding site [chemical binding]; other site 224914009149 homodimer interface [polypeptide binding]; other site 224914009150 active site 224914009151 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 224914009152 NAD(P) binding site [chemical binding]; other site 224914009153 active site 224914009154 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 224914009155 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 224914009156 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 224914009157 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 224914009158 Chain length determinant protein; Region: Wzz; cl15801 224914009159 AAA domain; Region: AAA_31; pfam13614 224914009160 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 224914009161 G3 box; other site 224914009162 Switch II region; other site 224914009163 G4 box; other site 224914009164 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 224914009165 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 224914009166 DNA binding residues [nucleotide binding] 224914009167 dimerization interface [polypeptide binding]; other site 224914009168 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 224914009169 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 224914009170 ligand binding site [chemical binding]; other site 224914009171 flexible hinge region; other site 224914009172 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 224914009173 putative switch regulator; other site 224914009174 non-specific DNA interactions [nucleotide binding]; other site 224914009175 DNA binding site [nucleotide binding] 224914009176 sequence specific DNA binding site [nucleotide binding]; other site 224914009177 putative cAMP binding site [chemical binding]; other site 224914009178 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 224914009179 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 224914009180 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 224914009181 putative active site cavity [active] 224914009182 N-acetylmannosamine kinase; Provisional; Region: PRK05082 224914009183 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 224914009184 nucleotide binding site [chemical binding]; other site 224914009185 Transcriptional regulators [Transcription]; Region: FadR; COG2186 224914009186 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224914009187 DNA-binding site [nucleotide binding]; DNA binding site 224914009188 FCD domain; Region: FCD; pfam07729 224914009189 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 224914009190 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 224914009191 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 224914009192 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914009193 dimer interface [polypeptide binding]; other site 224914009194 conserved gate region; other site 224914009195 putative PBP binding loops; other site 224914009196 ABC-ATPase subunit interface; other site 224914009197 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 224914009198 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914009199 dimer interface [polypeptide binding]; other site 224914009200 conserved gate region; other site 224914009201 putative PBP binding loops; other site 224914009202 ABC-ATPase subunit interface; other site 224914009203 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 224914009204 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 224914009205 inhibitor site; inhibition site 224914009206 active site 224914009207 dimer interface [polypeptide binding]; other site 224914009208 catalytic residue [active] 224914009209 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 224914009210 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 224914009211 Walker A/P-loop; other site 224914009212 ATP binding site [chemical binding]; other site 224914009213 Q-loop/lid; other site 224914009214 ABC transporter signature motif; other site 224914009215 Walker B; other site 224914009216 D-loop; other site 224914009217 H-loop/switch region; other site 224914009218 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 224914009219 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 224914009220 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 224914009221 Walker A/P-loop; other site 224914009222 ATP binding site [chemical binding]; other site 224914009223 Q-loop/lid; other site 224914009224 ABC transporter signature motif; other site 224914009225 Walker B; other site 224914009226 D-loop; other site 224914009227 H-loop/switch region; other site 224914009228 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 224914009229 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 224914009230 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 224914009231 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 224914009232 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 224914009233 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 224914009234 Zinc-dependent alcohol dehydrogenases (ADH) and class III ADG (AKA formaldehyde dehydrogenase); Region: liver_ADH_like1; cd08281 224914009235 NAD binding site [chemical binding]; other site 224914009236 catalytic Zn binding site [ion binding]; other site 224914009237 substrate binding site [chemical binding]; other site 224914009238 structural Zn binding site [ion binding]; other site 224914009239 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 224914009240 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 224914009241 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 224914009242 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 224914009243 tetramerization interface [polypeptide binding]; other site 224914009244 NAD(P) binding site [chemical binding]; other site 224914009245 catalytic residues [active] 224914009246 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 224914009247 choline dehydrogenase; Validated; Region: PRK02106 224914009248 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 224914009249 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 224914009250 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 224914009251 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 224914009252 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 224914009253 shikimate binding site; other site 224914009254 NAD(P) binding site [chemical binding]; other site 224914009255 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 224914009256 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 224914009257 NAD(P) binding site [chemical binding]; other site 224914009258 active site 224914009259 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 224914009260 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 224914009261 Walker A/P-loop; other site 224914009262 ATP binding site [chemical binding]; other site 224914009263 Q-loop/lid; other site 224914009264 ABC transporter signature motif; other site 224914009265 Walker B; other site 224914009266 D-loop; other site 224914009267 H-loop/switch region; other site 224914009268 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 224914009269 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 224914009270 TM-ABC transporter signature motif; other site 224914009271 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 224914009272 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 224914009273 TM-ABC transporter signature motif; other site 224914009274 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 224914009275 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 224914009276 Walker A/P-loop; other site 224914009277 ATP binding site [chemical binding]; other site 224914009278 Q-loop/lid; other site 224914009279 ABC transporter signature motif; other site 224914009280 Walker B; other site 224914009281 D-loop; other site 224914009282 H-loop/switch region; other site 224914009283 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 224914009284 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 224914009285 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 224914009286 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 224914009287 NAD(P) binding site [chemical binding]; other site 224914009288 Transcriptional regulators [Transcription]; Region: GntR; COG1802 224914009289 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224914009290 DNA-binding site [nucleotide binding]; DNA binding site 224914009291 FCD domain; Region: FCD; pfam07729 224914009292 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 224914009293 Cytochrome P450; Region: p450; cl12078 224914009294 acetate kinase; Provisional; Region: PRK07058 224914009295 propionate/acetate kinase; Provisional; Region: PRK12379 224914009296 putative phosphoketolase; Provisional; Region: PRK05261 224914009297 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 224914009298 TPP-binding site; other site 224914009299 XFP C-terminal domain; Region: XFP_C; pfam09363 224914009300 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 224914009301 4Fe-4S binding domain; Region: Fer4_5; pfam12801 224914009302 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 224914009303 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 224914009304 Uncharacterized protein probably involved in high-affinity Fe2+ transport [Inorganic ion transport and metabolism]; Region: Tpd; COG3470 224914009305 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 224914009306 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 224914009307 AMP/PPi binding site [chemical binding]; other site 224914009308 candidate oxyanion hole; other site 224914009309 catalytic triad [active] 224914009310 potential glutamine specificity residues [chemical binding]; other site 224914009311 GMP synthase, PP-ATPase domain/subunit [Nucleotide transport and metabolism]; Region: GuaA; COG0519 224914009312 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 224914009313 ATP Binding subdomain [chemical binding]; other site 224914009314 Ligand Binding sites [chemical binding]; other site 224914009315 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK06026 224914009316 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase, putative; Region: MTA/SAH-nuc-hyp; TIGR01705 224914009317 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 224914009318 CoenzymeA binding site [chemical binding]; other site 224914009319 subunit interaction site [polypeptide binding]; other site 224914009320 PHB binding site; other site 224914009321 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 224914009322 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 224914009323 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 224914009324 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 224914009325 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 224914009326 tetramer interface [polypeptide binding]; other site 224914009327 heme binding pocket [chemical binding]; other site 224914009328 NADPH binding site [chemical binding]; other site 224914009329 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 224914009330 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224914009331 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 224914009332 dimerization interface [polypeptide binding]; other site 224914009333 Cytochrome c [Energy production and conversion]; Region: COG3258 224914009334 Cytochrome c; Region: Cytochrom_C; pfam00034 224914009335 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 224914009336 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 224914009337 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 224914009338 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 224914009339 active site 224914009340 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 224914009341 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 224914009342 putative ion selectivity filter; other site 224914009343 putative pore gating glutamate residue; other site 224914009344 putative H+/Cl- coupling transport residue; other site 224914009345 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 224914009346 putative active site pocket [active] 224914009347 cleavage site 224914009348 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 224914009349 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 224914009350 active site 224914009351 substrate binding site [chemical binding]; other site 224914009352 metal binding site [ion binding]; metal-binding site 224914009353 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 224914009354 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 224914009355 Substrate binding site; other site 224914009356 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 224914009357 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 224914009358 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224914009359 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 224914009360 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 224914009361 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 224914009362 acid-resistance protein; Provisional; Region: PRK10208 224914009363 Glutaminase; Region: Glutaminase; cl00907 224914009364 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 224914009365 Glutaminase; Region: Glutaminase; cl00907 224914009366 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 224914009367 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 224914009368 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 224914009369 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 224914009370 catalytic residue [active] 224914009371 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 224914009372 Predicted membrane protein [Function unknown]; Region: COG4803 224914009373 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 224914009374 HlyD family secretion protein; Region: HlyD_3; pfam13437 224914009375 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 224914009376 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 224914009377 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 224914009378 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 224914009379 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914009380 dimer interface [polypeptide binding]; other site 224914009381 conserved gate region; other site 224914009382 putative PBP binding loops; other site 224914009383 ABC-ATPase subunit interface; other site 224914009384 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914009385 dimer interface [polypeptide binding]; other site 224914009386 conserved gate region; other site 224914009387 putative PBP binding loops; other site 224914009388 ABC-ATPase subunit interface; other site 224914009389 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 224914009390 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 224914009391 Walker A/P-loop; other site 224914009392 ATP binding site [chemical binding]; other site 224914009393 Q-loop/lid; other site 224914009394 ABC transporter signature motif; other site 224914009395 Walker B; other site 224914009396 D-loop; other site 224914009397 H-loop/switch region; other site 224914009398 TOBE domain; Region: TOBE_2; pfam08402 224914009399 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 224914009400 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 224914009401 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 224914009402 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 224914009403 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 224914009404 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 224914009405 Switch I; other site 224914009406 Switch II; other site 224914009407 septum formation inhibitor; Reviewed; Region: minC; PRK05177 224914009408 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 224914009409 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 224914009410 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 224914009411 dimer interface [polypeptide binding]; other site 224914009412 putative radical transfer pathway; other site 224914009413 diiron center [ion binding]; other site 224914009414 tyrosyl radical; other site 224914009415 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 224914009416 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 224914009417 Class I ribonucleotide reductase; Region: RNR_I; cd01679 224914009418 active site 224914009419 dimer interface [polypeptide binding]; other site 224914009420 catalytic residues [active] 224914009421 effector binding site; other site 224914009422 R2 peptide binding site; other site 224914009423 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 224914009424 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 224914009425 catalytic residues [active] 224914009426 Transmembrane secretion effector; Region: MFS_3; pfam05977 224914009427 Transmembrane secretion effector; Region: MFS_3; pfam05977 224914009428 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 224914009429 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 224914009430 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 224914009431 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 224914009432 Trehalose utilization protein [Carbohydrate transport and metabolism]; Region: ThuA; COG4813 224914009433 conserved cys residue [active] 224914009434 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224914009435 ABC transporter signature motif; other site 224914009436 Walker B; other site 224914009437 D-loop; other site 224914009438 H-loop/switch region; other site 224914009439 TOBE domain; Region: TOBE_2; pfam08402 224914009440 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 224914009441 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224914009442 Walker A/P-loop; other site 224914009443 ATP binding site [chemical binding]; other site 224914009444 Q-loop/lid; other site 224914009445 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 224914009446 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914009447 dimer interface [polypeptide binding]; other site 224914009448 conserved gate region; other site 224914009449 putative PBP binding loops; other site 224914009450 ABC-ATPase subunit interface; other site 224914009451 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914009452 putative PBP binding loops; other site 224914009453 dimer interface [polypeptide binding]; other site 224914009454 ABC-ATPase subunit interface; other site 224914009455 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 224914009456 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 224914009457 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 224914009458 Transcriptional regulators [Transcription]; Region: PurR; COG1609 224914009459 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 224914009460 DNA binding site [nucleotide binding] 224914009461 domain linker motif; other site 224914009462 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 224914009463 ligand binding site [chemical binding]; other site 224914009464 transcriptional activator FtrB; Provisional; Region: ftrB; PRK09392 224914009465 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 224914009466 ligand binding site [chemical binding]; other site 224914009467 flexible hinge region; other site 224914009468 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 224914009469 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 224914009470 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 224914009471 putative substrate translocation pore; other site 224914009472 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 224914009473 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 224914009474 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 224914009475 [4Fe-4S] binding site [ion binding]; other site 224914009476 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 224914009477 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 224914009478 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 224914009479 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 224914009480 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 224914009481 molybdopterin cofactor binding site; other site 224914009482 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 224914009483 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; cl00470 224914009484 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 224914009485 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 224914009486 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 224914009487 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 224914009488 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 224914009489 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 224914009490 Flavoprotein; Region: Flavoprotein; pfam02441 224914009491 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 224914009492 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 224914009493 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 224914009494 Peptidase family U32; Region: Peptidase_U32; pfam01136 224914009495 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 224914009496 putative protease; Provisional; Region: PRK15447 224914009497 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 224914009498 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 224914009499 Walker A/P-loop; other site 224914009500 ATP binding site [chemical binding]; other site 224914009501 Q-loop/lid; other site 224914009502 ABC transporter signature motif; other site 224914009503 Walker B; other site 224914009504 D-loop; other site 224914009505 H-loop/switch region; other site 224914009506 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 224914009507 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914009508 dimer interface [polypeptide binding]; other site 224914009509 conserved gate region; other site 224914009510 putative PBP binding loops; other site 224914009511 ABC-ATPase subunit interface; other site 224914009512 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 224914009513 NMT1-like family; Region: NMT1_2; pfam13379 224914009514 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 224914009515 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 224914009516 pseudoazurin; Region: pseudoazurin; TIGR02375 224914009517 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 224914009518 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 224914009519 putative switch regulator; other site 224914009520 non-specific DNA interactions [nucleotide binding]; other site 224914009521 DNA binding site [nucleotide binding] 224914009522 sequence specific DNA binding site [nucleotide binding]; other site 224914009523 putative cAMP binding site [chemical binding]; other site 224914009524 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 224914009525 ApbE family; Region: ApbE; pfam02424 224914009526 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 224914009527 Predicted lipoprotein involved in nitrous oxide reduction [Energy production and conversion]; Region: NosL; COG4314 224914009528 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 224914009529 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 224914009530 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 224914009531 Walker A/P-loop; other site 224914009532 ATP binding site [chemical binding]; other site 224914009533 Q-loop/lid; other site 224914009534 ABC transporter signature motif; other site 224914009535 Walker B; other site 224914009536 D-loop; other site 224914009537 H-loop/switch region; other site 224914009538 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 224914009539 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 224914009540 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 224914009541 nitrous-oxide reductase; Validated; Region: PRK02888 224914009542 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 224914009543 nitrous-oxide reductase; Validated; Region: PRK02888 224914009544 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 224914009545 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 224914009546 4Fe-4S binding domain; Region: Fer4_5; pfam12801 224914009547 4Fe-4S binding domain; Region: Fer4_5; pfam12801 224914009548 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 224914009549 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 224914009550 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 224914009551 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 224914009552 RES domain; Region: RES; smart00953 224914009553 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 224914009554 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 224914009555 N- and C-terminal domain interface [polypeptide binding]; other site 224914009556 active site 224914009557 MgATP binding site [chemical binding]; other site 224914009558 catalytic site [active] 224914009559 metal binding site [ion binding]; metal-binding site 224914009560 carbohydrate binding site [chemical binding]; other site 224914009561 putative homodimer interface [polypeptide binding]; other site 224914009562 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 224914009563 classical (c) SDRs; Region: SDR_c; cd05233 224914009564 NAD(P) binding site [chemical binding]; other site 224914009565 active site 224914009566 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 224914009567 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 224914009568 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 224914009569 TM-ABC transporter signature motif; other site 224914009570 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 224914009571 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224914009572 Walker A/P-loop; other site 224914009573 ATP binding site [chemical binding]; other site 224914009574 Q-loop/lid; other site 224914009575 ABC transporter signature motif; other site 224914009576 Walker B; other site 224914009577 D-loop; other site 224914009578 H-loop/switch region; other site 224914009579 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 224914009580 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 224914009581 putative ligand binding site [chemical binding]; other site 224914009582 Transcriptional regulators [Transcription]; Region: PurR; COG1609 224914009583 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 224914009584 DNA binding site [nucleotide binding] 224914009585 domain linker motif; other site 224914009586 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 224914009587 dimerization interface [polypeptide binding]; other site 224914009588 ligand binding site [chemical binding]; other site 224914009589 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 224914009590 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 224914009591 ligand binding site [chemical binding]; other site 224914009592 flexible hinge region; other site 224914009593 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 224914009594 putative switch regulator; other site 224914009595 non-specific DNA interactions [nucleotide binding]; other site 224914009596 DNA binding site [nucleotide binding] 224914009597 sequence specific DNA binding site [nucleotide binding]; other site 224914009598 putative cAMP binding site [chemical binding]; other site 224914009599 Uncharacterized conserved protein [Function unknown]; Region: COG1262 224914009600 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 224914009601 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 224914009602 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 224914009603 Multicopper oxidase; Region: Cu-oxidase; pfam00394 224914009604 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 224914009605 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 224914009606 nucleophilic elbow; other site 224914009607 catalytic triad; other site 224914009608 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 224914009609 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 224914009610 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 224914009611 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 224914009612 CPxP motif; other site 224914009613 Uncharacterized conserved protein [Function unknown]; Region: COG4309 224914009614 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 224914009615 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 224914009616 metal ion-dependent adhesion site (MIDAS); other site 224914009617 MoxR-like ATPases [General function prediction only]; Region: COG0714 224914009618 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 224914009619 Walker A motif; other site 224914009620 ATP binding site [chemical binding]; other site 224914009621 Walker B motif; other site 224914009622 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 224914009623 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 224914009624 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 224914009625 Binuclear center (active site) [active] 224914009626 K-pathway; other site 224914009627 Putative proton exit pathway; other site 224914009628 Cytochrome c; Region: Cytochrom_C; pfam00034 224914009629 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 224914009630 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 224914009631 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 224914009632 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 224914009633 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 224914009634 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 224914009635 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 224914009636 inhibitor site; inhibition site 224914009637 active site 224914009638 dimer interface [polypeptide binding]; other site 224914009639 catalytic residue [active] 224914009640 Transcriptional regulators [Transcription]; Region: GntR; COG1802 224914009641 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224914009642 DNA-binding site [nucleotide binding]; DNA binding site 224914009643 FCD domain; Region: FCD; pfam07729 224914009644 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 224914009645 EamA-like transporter family; Region: EamA; pfam00892 224914009646 EamA-like transporter family; Region: EamA; cl17759 224914009647 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 224914009648 GAF domain; Region: GAF; pfam01590 224914009649 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 224914009650 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 224914009651 metal binding site [ion binding]; metal-binding site 224914009652 active site 224914009653 I-site; other site 224914009654 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 224914009655 ApbE family; Region: ApbE; pfam02424 224914009656 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 224914009657 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 224914009658 Flavodoxin; Region: Flavodoxin_1; pfam00258 224914009659 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 224914009660 FAD binding pocket [chemical binding]; other site 224914009661 FAD binding motif [chemical binding]; other site 224914009662 catalytic residues [active] 224914009663 NAD binding pocket [chemical binding]; other site 224914009664 phosphate binding motif [ion binding]; other site 224914009665 beta-alpha-beta structure motif; other site 224914009666 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 224914009667 Uncharacterized conserved protein [Function unknown]; Region: COG5591 224914009668 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 224914009669 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 224914009670 active site 224914009671 phosphorylation site [posttranslational modification] 224914009672 intermolecular recognition site; other site 224914009673 dimerization interface [polypeptide binding]; other site 224914009674 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 224914009675 DNA binding site [nucleotide binding] 224914009676 sensor protein QseC; Provisional; Region: PRK10337 224914009677 HAMP domain; Region: HAMP; pfam00672 224914009678 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 224914009679 dimer interface [polypeptide binding]; other site 224914009680 phosphorylation site [posttranslational modification] 224914009681 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 224914009682 Mg2+ binding site [ion binding]; other site 224914009683 G-X-G motif; other site 224914009684 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 224914009685 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 224914009686 potential catalytic triad [active] 224914009687 conserved cys residue [active] 224914009688 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg7; cd04786 224914009689 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 224914009690 DNA binding residues [nucleotide binding] 224914009691 putative dimer interface [polypeptide binding]; other site 224914009692 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 224914009693 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 224914009694 putative active site [active] 224914009695 putative FMN binding site [chemical binding]; other site 224914009696 putative substrate binding site [chemical binding]; other site 224914009697 putative catalytic residue [active] 224914009698 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 224914009699 CoA-transferase family III; Region: CoA_transf_3; pfam02515 224914009700 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 224914009701 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 224914009702 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 224914009703 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 224914009704 enoyl-CoA hydratase; Provisional; Region: PRK08138 224914009705 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 224914009706 substrate binding site [chemical binding]; other site 224914009707 oxyanion hole (OAH) forming residues; other site 224914009708 trimer interface [polypeptide binding]; other site 224914009709 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 224914009710 Transcriptional regulator [Transcription]; Region: IclR; COG1414 224914009711 Bacterial transcriptional regulator; Region: IclR; pfam01614 224914009712 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 224914009713 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 224914009714 active site 224914009715 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 224914009716 putative substrate translocation pore; other site 224914009717 Protein of unknown function (DUF3604); Region: DUF3604; pfam12228 224914009718 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 224914009719 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 224914009720 ATP binding site [chemical binding]; other site 224914009721 Mg2+ binding site [ion binding]; other site 224914009722 G-X-G motif; other site 224914009723 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 224914009724 ATP binding site [chemical binding]; other site 224914009725 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 224914009726 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3908 224914009727 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 224914009728 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 224914009729 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 224914009730 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 224914009731 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 224914009732 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 224914009733 putative acyl-acceptor binding pocket; other site 224914009734 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 224914009735 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 224914009736 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 224914009737 active site 224914009738 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 224914009739 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 224914009740 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 224914009741 TrkA-N domain; Region: TrkA_N; pfam02254 224914009742 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 224914009743 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 224914009744 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 224914009745 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 224914009746 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 224914009747 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 224914009748 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 224914009749 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 224914009750 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 224914009751 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 224914009752 S-adenosylmethionine binding site [chemical binding]; other site 224914009753 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 224914009754 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 224914009755 RNA binding surface [nucleotide binding]; other site 224914009756 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 224914009757 active site 224914009758 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 224914009759 nucleoside/Zn binding site; other site 224914009760 dimer interface [polypeptide binding]; other site 224914009761 catalytic motif [active] 224914009762 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 224914009763 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 224914009764 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 224914009765 active site 224914009766 HIGH motif; other site 224914009767 nucleotide binding site [chemical binding]; other site 224914009768 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 224914009769 active site 224914009770 KMSKS motif; other site 224914009771 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 224914009772 tRNA binding surface [nucleotide binding]; other site 224914009773 anticodon binding site; other site 224914009774 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 224914009775 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 224914009776 active site 224914009777 Riboflavin kinase; Region: Flavokinase; smart00904 224914009778 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 224914009779 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 224914009780 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 224914009781 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 224914009782 oligomerisation interface [polypeptide binding]; other site 224914009783 mobile loop; other site 224914009784 roof hairpin; other site 224914009785 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 224914009786 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 224914009787 ring oligomerisation interface [polypeptide binding]; other site 224914009788 ATP/Mg binding site [chemical binding]; other site 224914009789 stacking interactions; other site 224914009790 hinge regions; other site 224914009791 fumarate hydratase; Reviewed; Region: fumC; PRK00485 224914009792 Class II fumarases; Region: Fumarase_classII; cd01362 224914009793 active site 224914009794 tetramer interface [polypeptide binding]; other site 224914009795 Predicted membrane protein [Function unknown]; Region: COG2259 224914009796 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 224914009797 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 224914009798 putative substrate translocation pore; other site 224914009799 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 224914009800 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 224914009801 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 224914009802 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 224914009803 motif 1; other site 224914009804 dimer interface [polypeptide binding]; other site 224914009805 active site 224914009806 motif 2; other site 224914009807 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 224914009808 active site 224914009809 motif 3; other site 224914009810 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 224914009811 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 224914009812 dimer interface [polypeptide binding]; other site 224914009813 motif 1; other site 224914009814 motif 2; other site 224914009815 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 224914009816 active site 224914009817 motif 3; other site 224914009818 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 224914009819 anticodon binding site; other site 224914009820 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 224914009821 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 224914009822 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 224914009823 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 224914009824 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 224914009825 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 224914009826 active site 224914009827 catalytic tetrad [active] 224914009828 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 224914009829 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 224914009830 Cysteine-rich domain; Region: CCG; pfam02754 224914009831 Cysteine-rich domain; Region: CCG; pfam02754 224914009832 FAD binding domain; Region: FAD_binding_4; pfam01565 224914009833 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 224914009834 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 224914009835 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 224914009836 FAD binding domain; Region: FAD_binding_4; pfam01565 224914009837 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224914009838 transcriptional activator TtdR; Provisional; Region: PRK09801 224914009839 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 224914009840 putative effector binding pocket; other site 224914009841 dimerization interface [polypeptide binding]; other site 224914009842 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 224914009843 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 224914009844 DNA-binding site [nucleotide binding]; DNA binding site 224914009845 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 224914009846 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 224914009847 Cytochrome c2 [Energy production and conversion]; Region: COG3474 224914009848 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 224914009849 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 224914009850 Autotransporter beta-domain; Region: Autotransporter; smart00869 224914009851 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 224914009852 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 224914009853 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 224914009854 Uncharacterized conserved protein [Function unknown]; Region: COG3777 224914009855 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 224914009856 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 224914009857 active site 2 [active] 224914009858 active site 1 [active] 224914009859 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 224914009860 CoA-transferase family III; Region: CoA_transf_3; pfam02515 224914009861 Transcriptional regulator [Transcription]; Region: LysR; COG0583 224914009862 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224914009863 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 224914009864 putative dimerization interface [polypeptide binding]; other site 224914009865 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4893 224914009866 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 224914009867 FliP family; Region: FliP; cl00593 224914009868 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 224914009869 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 224914009870 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 224914009871 Uncharacterized conserved protein [Function unknown]; Region: COG3334 224914009872 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 224914009873 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 224914009874 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK06005 224914009875 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 224914009876 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 224914009877 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 224914009878 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00790 224914009879 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK12782 224914009880 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 224914009881 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 224914009882 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06003 224914009883 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 224914009884 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 224914009885 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 224914009886 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 224914009887 Metal-binding active site; metal-binding site 224914009888 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 224914009889 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 224914009890 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 224914009891 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 224914009892 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 224914009893 putative NAD(P) binding site [chemical binding]; other site 224914009894 active site 224914009895 putative substrate binding site [chemical binding]; other site 224914009896 putative aldolase; Validated; Region: PRK08130 224914009897 intersubunit interface [polypeptide binding]; other site 224914009898 active site 224914009899 Zn2+ binding site [ion binding]; other site 224914009900 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 224914009901 D-galactonate transporter; Region: 2A0114; TIGR00893 224914009902 putative substrate translocation pore; other site 224914009903 Transposase; Region: HTH_Tnp_1; cl17663 224914009904 Helix-turn-helix domain; Region: HTH_18; pfam12833 224914009905 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 224914009906 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 224914009907 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 224914009908 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 224914009909 putative active site [active] 224914009910 YdjC motif; other site 224914009911 Mg binding site [ion binding]; other site 224914009912 putative homodimer interface [polypeptide binding]; other site 224914009913 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 224914009914 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 224914009915 Ligand binding site; other site 224914009916 Putative Catalytic site; other site 224914009917 DXD motif; other site 224914009918 Peptidase family M48; Region: Peptidase_M48; cl12018 224914009919 PAP2_like proteins, Lipid A 1-phosphatase subfamily. Lipid A 1-phosphatase, or LpxE from Francisella novicida selectively dephosphorylates lipid A at the 1-position. Lipid A is the membrane-anchor component of lipopolysaccharides (LPS), the major...; Region: PAP2_lipid_A_1_phosphatase; cd03389 224914009920 active site 224914009921 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06002 224914009922 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 224914009923 Walker A motif; other site 224914009924 ATP binding site [chemical binding]; other site 224914009925 Walker B motif; other site 224914009926 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06002 224914009927 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12642 224914009928 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 224914009929 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 224914009930 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 224914009931 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 224914009932 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 224914009933 flagellar motor protein MotA; Validated; Region: PRK09110 224914009934 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 224914009935 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 224914009936 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 224914009937 Flagellar motor switch protein [Cell motility and secretion]; Region: FliG; COG1536 224914009938 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; COG1377 224914009939 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 224914009940 Autoinducer binding domain; Region: Autoind_bind; pfam03472 224914009941 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 224914009942 DNA binding residues [nucleotide binding] 224914009943 dimerization interface [polypeptide binding]; other site 224914009944 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 224914009945 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 224914009946 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 224914009947 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 224914009948 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 224914009949 HlyD family secretion protein; Region: HlyD_3; pfam13437 224914009950 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 224914009951 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 224914009952 putative substrate translocation pore; other site 224914009953 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 224914009954 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 224914009955 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914009956 dimer interface [polypeptide binding]; other site 224914009957 conserved gate region; other site 224914009958 putative PBP binding loops; other site 224914009959 ABC-ATPase subunit interface; other site 224914009960 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 224914009961 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 224914009962 dimer interface [polypeptide binding]; other site 224914009963 conserved gate region; other site 224914009964 putative PBP binding loops; other site 224914009965 ABC-ATPase subunit interface; other site 224914009966 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 224914009967 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 224914009968 Walker A/P-loop; other site 224914009969 ATP binding site [chemical binding]; other site 224914009970 Q-loop/lid; other site 224914009971 ABC transporter signature motif; other site 224914009972 Walker B; other site 224914009973 D-loop; other site 224914009974 H-loop/switch region; other site 224914009975 TOBE domain; Region: TOBE_2; pfam08402 224914009976 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 224914009977 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 224914009978 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 224914009979 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 224914009980 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 224914009981 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 224914009982 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 224914009983 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 224914009984 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 224914009985 O-Antigen ligase; Region: Wzy_C; pfam04932 224914009986 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 224914009987 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 224914009988 active site 224914009989 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 224914009990 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 224914009991 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 224914009992 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 224914009993 Chain length determinant protein; Region: Wzz; pfam02706 224914009994 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 224914009995 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 224914009996 dimer interface [polypeptide binding]; other site 224914009997 active site 224914009998 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 224914009999 catalytic residues [active] 224914010000 substrate binding site [chemical binding]; other site 224914010001 amidase; Provisional; Region: PRK08310 224914010002 indole-3-acetamide amidohydrolase; Region: PLN02722 224914010003 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 224914010004 LysR family transcriptional regulator; Provisional; Region: PRK14997 224914010005 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 224914010006 putative effector binding pocket; other site 224914010007 dimerization interface [polypeptide binding]; other site 224914010008 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG3683 224914010009 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215