-- dump date 20120504_161942 -- class Genbank::misc_feature -- table misc_feature_note -- id note 452662000001 Replication initiator protein A; Region: RPA; cl02339 452662000002 ParA-like protein; Provisional; Region: PHA02518 452662000003 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 452662000004 P-loop; other site 452662000005 Magnesium ion binding site [ion binding]; other site 452662000006 SprT-like family; Region: SprT-like; pfam10263 452662000007 recognition site for restriction enzyme PmeI 452662000008 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 452662000009 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 452662000010 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 452662000011 catalytic core [active] 452662000012 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 452662000013 Integrase core domain; Region: rve; cl01316 452662000014 DDE domain; Region: DDE_Tnp_IS240; pfam13610 452662000015 Integrase core domain; Region: rve; cl01316 452662000016 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 452662000017 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 452662000018 Rv0623-like transcription factor; Region: PSK_trans_fac; cl01834 452662000019 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 452662000020 putative active site [active] 452662000021 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 452662000022 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 452662000023 active site 452662000024 DNA binding site [nucleotide binding] 452662000025 Int/Topo IB signature motif; other site 452662000026 may be target duplication site 452662000027 Helix-turn-helix domains; Region: HTH; cl00088 452662000028 Winged helix-turn helix; Region: HTH_29; pfam13551 452662000029 Helix-turn-helix domains; Region: HTH; cl00088 452662000030 Integrase core domain; Region: rve; cl01316 452662000031 may be target duplication site 452662000032 DDE superfamily endonuclease; Region: DDE_5; cl02413 452662000033 transposase; Validated; Region: PRK08181 452662000034 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 452662000035 Walker A motif; other site 452662000036 ATP binding site [chemical binding]; other site 452662000037 Walker B motif; other site 452662000038 Transposase, Mutator family; Region: Transposase_mut; pfam00872 452662000039 MULE transposase domain; Region: MULE; pfam10551 452662000040 Integrase core domain; Region: rve; cl01316 452662000041 DDE domain; Region: DDE_Tnp_IS240; pfam13610 452662000042 Integrase core domain; Region: rve; cl01316 452662000043 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 452662000044 catalytic residues [active] 452662000045 catalytic nucleophile [active] 452662000046 Presynaptic Site I dimer interface [polypeptide binding]; other site 452662000047 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 452662000048 Synaptic Flat tetramer interface [polypeptide binding]; other site 452662000049 Synaptic Site I dimer interface [polypeptide binding]; other site 452662000050 recognition site for restriction enzyme PmeI 452662000051 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 452662000052 non-specific DNA binding site [nucleotide binding]; other site 452662000053 salt bridge; other site 452662000054 sequence-specific DNA binding site [nucleotide binding]; other site 452662000055 conjugal transfer relaxase TraA; Provisional; Region: PRK13889 452662000056 MobA/MobL family; Region: MobA_MobL; pfam03389 452662000057 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662000058 Family description; Region: UvrD_C_2; cl15862 452662000059 recognition site for restriction enzyme PmeI 452662000060 Conjugal transfer protein TraD; Region: TraD; cl05753 452662000061 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 452662000062 active site 452662000063 NTP binding site [chemical binding]; other site 452662000064 metal binding triad [ion binding]; metal-binding site 452662000065 antibiotic binding site [chemical binding]; other site 452662000066 HEPN domain; Region: HEPN; cl00824 452662000067 Protein of unknown function (DUF541); Region: SIMPL; cl01077 452662000068 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 452662000069 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662000070 Walker A motif; other site 452662000071 ATP binding site [chemical binding]; other site 452662000072 Walker B motif; other site 452662000073 recognition site for restriction enzyme PmeI 452662000074 recognition site for restriction enzyme PmeI 452662000075 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 452662000076 Maf-like protein; Provisional; Region: PRK14361 452662000077 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 452662000078 active site 452662000079 dimer interface [polypeptide binding]; other site 452662000080 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 452662000081 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 452662000082 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 452662000083 shikimate binding site; other site 452662000084 NAD(P) binding site [chemical binding]; other site 452662000085 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 452662000086 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 452662000087 CoA-binding site [chemical binding]; other site 452662000088 ATP-binding [chemical binding]; other site 452662000089 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 452662000090 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 452662000091 active site 452662000092 catalytic site [active] 452662000093 substrate binding site [chemical binding]; other site 452662000094 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 452662000095 30S subunit binding site; other site 452662000096 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 452662000097 active site 452662000098 phosphorylation site [posttranslational modification] 452662000099 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 452662000100 CoenzymeA binding site [chemical binding]; other site 452662000101 subunit interaction site [polypeptide binding]; other site 452662000102 PHB binding site; other site 452662000103 Protein of unknown function (DUF1491); Region: DUF1491; cl11568 452662000104 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 452662000105 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 452662000106 hypothetical protein; Provisional; Region: PRK08999 452662000107 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 452662000108 thiamine phosphate binding site [chemical binding]; other site 452662000109 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 452662000110 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 452662000111 catalytic residue [active] 452662000112 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662000113 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 452662000114 active site 452662000115 metal binding site [ion binding]; metal-binding site 452662000116 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 452662000117 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 452662000118 active site residue [active] 452662000119 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 452662000120 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 452662000121 ATP binding site [chemical binding]; other site 452662000122 putative Mg++ binding site [ion binding]; other site 452662000123 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 452662000124 nucleotide binding region [chemical binding]; other site 452662000125 ATP-binding site [chemical binding]; other site 452662000126 DEAD/H associated; Region: DEAD_assoc; pfam08494 452662000127 methionine gamma-lyase; Validated; Region: PRK07049 452662000128 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 452662000129 homodimer interface [polypeptide binding]; other site 452662000130 substrate-cofactor binding pocket; other site 452662000131 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452662000132 catalytic residue [active] 452662000133 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 452662000134 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662000135 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 452662000136 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 452662000137 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 452662000138 Permease; Region: Permease; cl00510 452662000139 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 452662000140 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662000141 Walker A/P-loop; other site 452662000142 ATP binding site [chemical binding]; other site 452662000143 Q-loop/lid; other site 452662000144 ABC transporter signature motif; other site 452662000145 Walker B; other site 452662000146 D-loop; other site 452662000147 H-loop/switch region; other site 452662000148 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 452662000149 mce related protein; Region: MCE; pfam02470 452662000150 Protein of unknown function (DUF330); Region: DUF330; cl01135 452662000151 aminopeptidase N; Provisional; Region: pepN; PRK14015 452662000152 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 452662000153 active site 452662000154 Zn binding site [ion binding]; other site 452662000155 ParB-like nuclease domain; Region: ParBc; cl02129 452662000156 ParB-like partition proteins; Region: parB_part; TIGR00180 452662000157 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 452662000158 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 452662000159 P-loop; other site 452662000160 Magnesium ion binding site [ion binding]; other site 452662000161 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 452662000162 Magnesium ion binding site [ion binding]; other site 452662000163 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; cl15754 452662000164 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 452662000165 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662000166 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 452662000167 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 452662000168 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 452662000169 trmE is a tRNA modification GTPase; Region: trmE; cd04164 452662000170 G1 box; other site 452662000171 GTP/Mg2+ binding site [chemical binding]; other site 452662000172 Switch I region; other site 452662000173 G2 box; other site 452662000174 Switch II region; other site 452662000175 G3 box; other site 452662000176 G4 box; other site 452662000177 G5 box; other site 452662000178 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 452662000179 Predicted ATPase [General function prediction only]; Region: COG2603 452662000180 Dienelactone hydrolase family; Region: DLH; pfam01738 452662000181 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 452662000182 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 452662000183 NADP binding site [chemical binding]; other site 452662000184 dimer interface [polypeptide binding]; other site 452662000185 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 452662000186 Integral membrane protein TerC family; Region: TerC; cl10468 452662000187 transcription termination factor Rho; Provisional; Region: rho; PRK09376 452662000188 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 452662000189 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 452662000190 RNA binding site [nucleotide binding]; other site 452662000191 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 452662000192 multimer interface [polypeptide binding]; other site 452662000193 Walker A motif; other site 452662000194 ATP binding site [chemical binding]; other site 452662000195 Walker B motif; other site 452662000196 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 452662000197 catalytic motif [active] 452662000198 Catalytic residue [active] 452662000199 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 452662000200 Transglycosylase; Region: Transgly; cl07896 452662000201 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 452662000202 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 452662000203 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 452662000204 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 452662000205 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 452662000206 Lipopolysaccharide-assembly; Region: LptE; cl01125 452662000207 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 452662000208 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 452662000209 HIGH motif; other site 452662000210 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 452662000211 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 452662000212 active site 452662000213 KMSKS motif; other site 452662000214 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 452662000215 tRNA binding surface [nucleotide binding]; other site 452662000216 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 452662000217 Predicted membrane protein [Function unknown]; Region: COG3650 452662000218 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 452662000219 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 452662000220 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 452662000221 Mg2+ binding site [ion binding]; other site 452662000222 G-X-G motif; other site 452662000223 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 452662000224 anchoring element; other site 452662000225 dimer interface [polypeptide binding]; other site 452662000226 ATP binding site [chemical binding]; other site 452662000227 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 452662000228 active site 452662000229 putative metal-binding site [ion binding]; other site 452662000230 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 452662000231 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 452662000232 Predicted membrane protein [Function unknown]; Region: COG2364 452662000233 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 452662000234 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 452662000235 DNA-binding site [nucleotide binding]; DNA binding site 452662000236 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 452662000237 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452662000238 homodimer interface [polypeptide binding]; other site 452662000239 catalytic residue [active] 452662000240 Protein of unknown function DUF45; Region: DUF45; cl00636 452662000241 Flagellin N-methylase; Region: FliB; cl00497 452662000242 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 452662000243 Cu(I) binding site [ion binding]; other site 452662000244 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 452662000245 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 452662000246 Transposase domain (DUF772); Region: DUF772; cl15789 452662000247 Transposase domain (DUF772); Region: DUF772; cl15789 452662000248 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 452662000249 dimer interface [polypeptide binding]; other site 452662000250 substrate binding site [chemical binding]; other site 452662000251 metal binding sites [ion binding]; metal-binding site 452662000252 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 452662000253 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 452662000254 Zn binding site [ion binding]; other site 452662000255 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 452662000256 protein binding site [polypeptide binding]; other site 452662000257 histidyl-tRNA synthetase; Region: hisS; TIGR00442 452662000258 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 452662000259 dimer interface [polypeptide binding]; other site 452662000260 motif 1; other site 452662000261 active site 452662000262 motif 2; other site 452662000263 motif 3; other site 452662000264 peptide chain release factor 1; Validated; Region: prfA; PRK00591 452662000265 RF-1 domain; Region: RF-1; cl02875 452662000266 RF-1 domain; Region: RF-1; cl02875 452662000267 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 452662000268 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 452662000269 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 452662000270 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 452662000271 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 452662000272 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 452662000273 MatE; Region: MatE; cl10513 452662000274 recognition site for restriction enzyme I-CeuI 452662000275 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 452662000276 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 452662000277 amino acid transporter; Region: 2A0306; TIGR00909 452662000278 Spore germination protein; Region: Spore_permease; cl15802 452662000279 Spore germination protein; Region: Spore_permease; cl15802 452662000280 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 452662000281 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 452662000282 putative substrate translocation pore; other site 452662000283 Sel1 repeat; Region: Sel1; cl02723 452662000284 Integrase core domain; Region: rve; cl01316 452662000285 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 452662000286 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 452662000287 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 452662000288 Protein of unknown function, DUF482; Region: DUF482; pfam04339 452662000289 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 452662000290 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 452662000291 active site 452662000292 catalytic site [active] 452662000293 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 452662000294 homotrimer interaction site [polypeptide binding]; other site 452662000295 putative active site [active] 452662000296 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 452662000297 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 452662000298 Response regulator receiver domain; Region: Response_reg; pfam00072 452662000299 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 452662000300 active site 452662000301 phosphorylation site [posttranslational modification] 452662000302 intermolecular recognition site; other site 452662000303 dimerization interface [polypeptide binding]; other site 452662000304 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 452662000305 active site 452662000306 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 452662000307 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 452662000308 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 452662000309 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 452662000310 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 452662000311 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 452662000312 putative NADH binding site [chemical binding]; other site 452662000313 putative active site [active] 452662000314 nudix motif; other site 452662000315 putative metal binding site [ion binding]; other site 452662000316 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 452662000317 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 452662000318 minor groove reading motif; other site 452662000319 helix-hairpin-helix signature motif; other site 452662000320 substrate binding pocket [chemical binding]; other site 452662000321 active site 452662000322 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 452662000323 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 452662000324 DNA binding and oxoG recognition site [nucleotide binding] 452662000325 Protein of unknown function (DUF721); Region: DUF721; cl02324 452662000326 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 452662000327 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 452662000328 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 452662000329 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 452662000330 Walker A/P-loop; other site 452662000331 ATP binding site [chemical binding]; other site 452662000332 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 452662000333 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 452662000334 ABC transporter signature motif; other site 452662000335 Walker B; other site 452662000336 D-loop; other site 452662000337 H-loop/switch region; other site 452662000338 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 452662000339 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 452662000340 putative active site [active] 452662000341 putative active site [active] 452662000342 catalytic site [active] 452662000343 catalytic site [active] 452662000344 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 452662000345 phospholipase D epsilon; Region: PLN02352 452662000346 putative active site [active] 452662000347 catalytic site [active] 452662000348 UbiA prenyltransferase family; Region: UbiA; cl00337 452662000349 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 452662000350 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 452662000351 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 452662000352 Phospholipid methyltransferase; Region: PEMT; cl00763 452662000353 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 452662000354 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 452662000355 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 452662000356 RuvA N terminal domain; Region: RuvA_N; pfam01330 452662000357 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 452662000358 GIY-YIG motif/motif A; other site 452662000359 putative active site [active] 452662000360 putative metal binding site [ion binding]; other site 452662000361 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 452662000362 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 452662000363 Walker A motif; other site 452662000364 ATP binding site [chemical binding]; other site 452662000365 Walker B motif; other site 452662000366 arginine finger; other site 452662000367 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 452662000368 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 452662000369 Ferritin-like domain; Region: Ferritin; pfam00210 452662000370 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 452662000371 dimerization interface [polypeptide binding]; other site 452662000372 DPS ferroxidase diiron center [ion binding]; other site 452662000373 ion pore; other site 452662000374 transcription elongation factor regulatory protein; Validated; Region: PRK06342 452662000375 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 452662000376 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 452662000377 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 452662000378 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 452662000379 metal ion-dependent adhesion site (MIDAS); other site 452662000380 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 452662000381 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 452662000382 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 452662000383 OsmC-like protein; Region: OsmC; cl00767 452662000384 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 452662000385 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 452662000386 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662000387 Ring-infected erythrocyte surface antigen; Provisional; Region: PTZ00341 452662000388 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 452662000389 HSP70 interaction site [polypeptide binding]; other site 452662000390 BolA-like protein; Region: BolA; cl00386 452662000391 GST_N family, Class Sigma_like; composed of GSTs belonging to class Sigma and similar proteins, including GSTs from class Mu, Pi and Alpha. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of...; Region: GST_N_Sigma_like; cd03039 452662000392 glutathione s-transferase; Provisional; Region: PTZ00057 452662000393 GSH binding site (G-site) [chemical binding]; other site 452662000394 C-terminal domain interface [polypeptide binding]; other site 452662000395 dimer interface [polypeptide binding]; other site 452662000396 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 452662000397 dimer interface [polypeptide binding]; other site 452662000398 N-terminal domain interface [polypeptide binding]; other site 452662000399 substrate binding pocket (H-site) [chemical binding]; other site 452662000400 Pirin-related protein [General function prediction only]; Region: COG1741 452662000401 Cupin domain; Region: Cupin_2; cl09118 452662000402 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 452662000403 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 452662000404 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 452662000405 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 452662000406 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662000407 Walker A/P-loop; other site 452662000408 ATP binding site [chemical binding]; other site 452662000409 Q-loop/lid; other site 452662000410 ABC transporter signature motif; other site 452662000411 Walker B; other site 452662000412 D-loop; other site 452662000413 H-loop/switch region; other site 452662000414 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 452662000415 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 452662000416 putative active site [active] 452662000417 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 452662000418 putative acyl-acceptor binding pocket; other site 452662000419 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 452662000420 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662000421 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 452662000422 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 452662000423 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452662000424 homodimer interface [polypeptide binding]; other site 452662000425 catalytic residue [active] 452662000426 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 452662000427 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662000428 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662000429 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 452662000430 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 452662000431 S-adenosylmethionine binding site [chemical binding]; other site 452662000432 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 452662000433 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 452662000434 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 452662000435 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 452662000436 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 452662000437 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662000438 NAD(P) binding site [chemical binding]; other site 452662000439 active site 452662000440 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 452662000441 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 452662000442 active site 452662000443 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 452662000444 intersubunit interface [polypeptide binding]; other site 452662000445 active site 452662000446 Zn2+ binding site [ion binding]; other site 452662000447 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 452662000448 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 452662000449 N-terminal plug; other site 452662000450 ligand-binding site [chemical binding]; other site 452662000451 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 452662000452 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 452662000453 substrate binding pocket [chemical binding]; other site 452662000454 membrane-bound complex binding site; other site 452662000455 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 452662000456 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 452662000457 active site 452662000458 non-prolyl cis peptide bond; other site 452662000459 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 452662000460 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 452662000461 N-terminal plug; other site 452662000462 ligand-binding site [chemical binding]; other site 452662000463 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 452662000464 Sulfatase; Region: Sulfatase; cl10460 452662000465 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 452662000466 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 452662000467 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662000468 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 452662000469 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662000470 NAD(P) binding site [chemical binding]; other site 452662000471 active site 452662000472 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 452662000473 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 452662000474 dimer interface [polypeptide binding]; other site 452662000475 active site 452662000476 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 452662000477 Helix-turn-helix domains; Region: HTH; cl00088 452662000478 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 452662000479 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 452662000480 substrate binding site [chemical binding]; other site 452662000481 oxyanion hole (OAH) forming residues; other site 452662000482 trimer interface [polypeptide binding]; other site 452662000483 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 452662000484 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 452662000485 substrate binding site [chemical binding]; other site 452662000486 oxyanion hole (OAH) forming residues; other site 452662000487 trimer interface [polypeptide binding]; other site 452662000488 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662000489 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 452662000490 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 452662000491 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 452662000492 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 452662000493 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 452662000494 active site 452662000495 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 452662000496 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 452662000497 Prostaglandin dehydrogenases; Region: PGDH; cd05288 452662000498 NAD(P) binding site [chemical binding]; other site 452662000499 substrate binding site [chemical binding]; other site 452662000500 dimer interface [polypeptide binding]; other site 452662000501 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 452662000502 AMP-binding enzyme; Region: AMP-binding; cl15778 452662000503 AMP-binding enzyme; Region: AMP-binding; cl15778 452662000504 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662000505 NAD(P) binding site [chemical binding]; other site 452662000506 active site 452662000507 Fic family protein [Function unknown]; Region: COG3177 452662000508 Fic/DOC family; Region: Fic; cl00960 452662000509 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 452662000510 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 452662000511 active site 452662000512 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 452662000513 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662000514 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 452662000515 active site 452662000516 Integral membrane protein TerC family; Region: TerC; cl10468 452662000517 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 452662000518 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 452662000519 ATM1 is an ABC transporter that is expressed in the mitochondria. Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to...; Region: ABCC_ATM1_transporter; cd03253 452662000520 Walker A/P-loop; other site 452662000521 ATP binding site [chemical binding]; other site 452662000522 Q-loop/lid; other site 452662000523 ABC transporter signature motif; other site 452662000524 Walker B; other site 452662000525 D-loop; other site 452662000526 H-loop/switch region; other site 452662000527 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 452662000528 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 452662000529 trimer interface [polypeptide binding]; other site 452662000530 active site 452662000531 substrate binding site [chemical binding]; other site 452662000532 CoA binding site [chemical binding]; other site 452662000533 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 452662000534 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 452662000535 motif II; other site 452662000536 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 452662000537 phytoene desaturase; Region: crtI_fam; TIGR02734 452662000538 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662000539 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662000540 lycopene cyclase family protein; Region: carotene-cycl; TIGR01790 452662000541 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 452662000542 putative metal binding site [ion binding]; other site 452662000543 putative homodimer interface [polypeptide binding]; other site 452662000544 putative homotetramer interface [polypeptide binding]; other site 452662000545 putative homodimer-homodimer interface [polypeptide binding]; other site 452662000546 putative allosteric switch controlling residues; other site 452662000547 Cation efflux family; Region: Cation_efflux; cl00316 452662000548 HI0933-like protein; Region: HI0933_like; pfam03486 452662000549 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662000550 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 452662000551 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 452662000552 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 452662000553 ATP binding site [chemical binding]; other site 452662000554 putative Mg++ binding site [ion binding]; other site 452662000555 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 452662000556 nucleotide binding region [chemical binding]; other site 452662000557 ATP-binding site [chemical binding]; other site 452662000558 RQC domain; Region: RQC; cl09632 452662000559 HRDC domain; Region: HRDC; cl02578 452662000560 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 452662000561 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 452662000562 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 452662000563 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 452662000564 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 452662000565 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 452662000566 Tetramer interface [polypeptide binding]; other site 452662000567 active site 452662000568 FMN-binding site [chemical binding]; other site 452662000569 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 452662000570 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 452662000571 NAD binding site [chemical binding]; other site 452662000572 homotetramer interface [polypeptide binding]; other site 452662000573 homodimer interface [polypeptide binding]; other site 452662000574 substrate binding site [chemical binding]; other site 452662000575 active site 452662000576 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 452662000577 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 452662000578 HSP70 interaction site [polypeptide binding]; other site 452662000579 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 452662000580 substrate binding site [polypeptide binding]; other site 452662000581 dimer interface [polypeptide binding]; other site 452662000582 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 452662000583 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 452662000584 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 452662000585 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 452662000586 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 452662000587 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 452662000588 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 452662000589 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 452662000590 GDP-binding site [chemical binding]; other site 452662000591 ACT binding site; other site 452662000592 IMP binding site; other site 452662000593 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 452662000594 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 452662000595 motif 1; other site 452662000596 dimer interface [polypeptide binding]; other site 452662000597 active site 452662000598 motif 2; other site 452662000599 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 452662000600 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662000601 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 452662000602 putative L-serine binding site [chemical binding]; other site 452662000603 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 452662000604 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 452662000605 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 452662000606 catalytic residue [active] 452662000607 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 452662000608 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 452662000609 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 452662000610 active site lid residues [active] 452662000611 substrate binding pocket [chemical binding]; other site 452662000612 catalytic residues [active] 452662000613 substrate-Mg2+ binding site; other site 452662000614 aspartate-rich region 1; other site 452662000615 aspartate-rich region 2; other site 452662000616 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 452662000617 Nitrogen regulatory protein P-II; Region: P-II; cl00412 452662000618 Nitrogen regulatory protein P-II; Region: P-II; smart00938 452662000619 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 452662000620 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 452662000621 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 452662000622 Zinc-finger domain; Region: zf-CHCC; cl01821 452662000623 Helix-turn-helix domains; Region: HTH; cl00088 452662000624 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 452662000625 homodimer interface [polypeptide binding]; other site 452662000626 substrate-cofactor binding pocket; other site 452662000627 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452662000628 catalytic residue [active] 452662000629 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 452662000630 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 452662000631 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 452662000632 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 452662000633 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 452662000634 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 452662000635 Walker A/P-loop; other site 452662000636 ATP binding site [chemical binding]; other site 452662000637 Q-loop/lid; other site 452662000638 ABC transporter signature motif; other site 452662000639 Walker B; other site 452662000640 D-loop; other site 452662000641 H-loop/switch region; other site 452662000642 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 452662000643 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 452662000644 Trp docking motif [polypeptide binding]; other site 452662000645 cytochrome domain interface [polypeptide binding]; other site 452662000646 active site 452662000647 Cytochrome c; Region: Cytochrom_C; cl11414 452662000648 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 452662000649 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662000650 CoA-ligase; Region: Ligase_CoA; cl02894 452662000651 benzoate transport; Region: 2A0115; TIGR00895 452662000652 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 452662000653 recognition site for restriction enzyme PmeI 452662000654 putative glutathione S-transferase; Provisional; Region: PRK10357 452662000655 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 452662000656 putative C-terminal domain interface [polypeptide binding]; other site 452662000657 putative GSH binding site (G-site) [chemical binding]; other site 452662000658 putative dimer interface [polypeptide binding]; other site 452662000659 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 452662000660 N-terminal domain interface [polypeptide binding]; other site 452662000661 dimer interface [polypeptide binding]; other site 452662000662 substrate binding pocket (H-site) [chemical binding]; other site 452662000663 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 452662000664 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 452662000665 active site 452662000666 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 452662000667 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 452662000668 Trp docking motif [polypeptide binding]; other site 452662000669 cytochrome domain interface [polypeptide binding]; other site 452662000670 active site 452662000671 Cytochrome c; Region: Cytochrom_C; cl11414 452662000672 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 452662000673 DUF35 OB-fold domain; Region: DUF35; pfam01796 452662000674 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 452662000675 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 452662000676 active site 452662000677 enoyl-CoA hydratase; Provisional; Region: PRK08140 452662000678 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 452662000679 substrate binding site [chemical binding]; other site 452662000680 oxyanion hole (OAH) forming residues; other site 452662000681 trimer interface [polypeptide binding]; other site 452662000682 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 452662000683 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 452662000684 substrate binding site [chemical binding]; other site 452662000685 oxyanion hole (OAH) forming residues; other site 452662000686 trimer interface [polypeptide binding]; other site 452662000687 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662000688 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 452662000689 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 452662000690 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 452662000691 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 452662000692 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662000693 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662000694 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 452662000695 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 452662000696 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 452662000697 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662000698 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662000699 Flagellin N-methylase; Region: FliB; cl00497 452662000700 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 452662000701 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 452662000702 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 452662000703 homotrimer interaction site [polypeptide binding]; other site 452662000704 putative active site [active] 452662000705 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 452662000706 active site 452662000707 metal binding site [ion binding]; metal-binding site 452662000708 benzoate transport; Region: 2A0115; TIGR00895 452662000709 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 452662000710 putative substrate translocation pore; other site 452662000711 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 452662000712 CoA-transferase family III; Region: CoA_transf_3; pfam02515 452662000713 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 452662000714 putative glutathione S-transferase; Provisional; Region: PRK10357 452662000715 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 452662000716 N-terminal domain interface [polypeptide binding]; other site 452662000717 dimer interface [polypeptide binding]; other site 452662000718 substrate binding pocket (H-site) [chemical binding]; other site 452662000719 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 452662000720 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 452662000721 DNA-binding site [nucleotide binding]; DNA binding site 452662000722 UTRA domain; Region: UTRA; cl01230 452662000723 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 452662000724 Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3; Region: Rieske_RO_Alpha_PhDO_like; cd03479 452662000725 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 452662000726 alpha subunit interface [polypeptide binding]; other site 452662000727 active site 452662000728 substrate binding site [chemical binding]; other site 452662000729 Fe binding site [ion binding]; other site 452662000730 putative glutathione S-transferase; Provisional; Region: PRK10357 452662000731 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 452662000732 putative C-terminal domain interface [polypeptide binding]; other site 452662000733 putative GSH binding site (G-site) [chemical binding]; other site 452662000734 putative dimer interface [polypeptide binding]; other site 452662000735 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 452662000736 dimer interface [polypeptide binding]; other site 452662000737 N-terminal domain interface [polypeptide binding]; other site 452662000738 putative substrate binding pocket (H-site) [chemical binding]; other site 452662000739 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 452662000740 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 452662000741 active site 452662000742 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 452662000743 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 452662000744 Transmembrane secretion effector; Region: MFS_3; pfam05977 452662000745 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 452662000746 Cytochrome c; Region: Cytochrom_C; cl11414 452662000747 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 452662000748 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662000749 CoA-ligase; Region: Ligase_CoA; cl02894 452662000750 ATP-grasp domain; Region: ATP-grasp_4; cl03087 452662000751 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 452662000752 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 452662000753 substrate binding site [chemical binding]; other site 452662000754 oxyanion hole (OAH) forming residues; other site 452662000755 trimer interface [polypeptide binding]; other site 452662000756 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 452662000757 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 452662000758 NAD(P) binding site [chemical binding]; other site 452662000759 catalytic residues [active] 452662000760 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 452662000761 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 452662000762 active site 452662000763 dimer interface [polypeptide binding]; other site 452662000764 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 452662000765 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 452662000766 active site 452662000767 FMN binding site [chemical binding]; other site 452662000768 substrate binding site [chemical binding]; other site 452662000769 3Fe-4S cluster binding site [ion binding]; other site 452662000770 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 452662000771 domain interface; other site 452662000772 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 452662000773 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 452662000774 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662000775 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 452662000776 Bacitracin resistance protein BacA; Region: BacA; cl00858 452662000777 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 452662000778 putative NAD(P) binding site [chemical binding]; other site 452662000779 active site 452662000780 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 452662000781 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 452662000782 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 452662000783 active site 452662000784 tetramer interface; other site 452662000785 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 452662000786 Peptidase family M48; Region: Peptidase_M48; cl12018 452662000787 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 452662000788 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 452662000789 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 452662000790 hexamer interface [polypeptide binding]; other site 452662000791 metal binding site [ion binding]; metal-binding site 452662000792 substrate binding site [chemical binding]; other site 452662000793 16S rRNA methyltransferase B; Provisional; Region: PRK10901 452662000794 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 452662000795 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 452662000796 S-adenosylmethionine binding site [chemical binding]; other site 452662000797 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 452662000798 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 452662000799 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 452662000800 Oligomerisation domain; Region: Oligomerisation; cl00519 452662000801 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 452662000802 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 452662000803 active site 452662000804 (T/H)XGH motif; other site 452662000805 hypothetical protein; Provisional; Region: PRK06194 452662000806 classical (c) SDRs; Region: SDR_c; cd05233 452662000807 NAD(P) binding site [chemical binding]; other site 452662000808 active site 452662000809 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 452662000810 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662000811 NAD(P) binding site [chemical binding]; other site 452662000812 active site 452662000813 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 452662000814 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 452662000815 active site 452662000816 Uncharacterized conserved protein [Function unknown]; Region: COG5361 452662000817 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 452662000818 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 452662000819 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 452662000820 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 452662000821 putative active site [active] 452662000822 putative substrate binding site [chemical binding]; other site 452662000823 ATP binding site [chemical binding]; other site 452662000824 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 452662000825 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 452662000826 active site 452662000827 dimer interface [polypeptide binding]; other site 452662000828 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 452662000829 predicted 30S ribosome binding site; other site 452662000830 rRNA binding site [nucleotide binding]; other site 452662000831 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 452662000832 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 452662000833 inhibitor-cofactor binding pocket; inhibition site 452662000834 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452662000835 catalytic residue [active] 452662000836 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 452662000837 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 452662000838 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 452662000839 active site 452662000840 Zn binding site [ion binding]; other site 452662000841 AAA domain; Region: AAA_26; pfam13500 452662000842 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662000843 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 452662000844 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 452662000845 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 452662000846 catalytic residue [active] 452662000847 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 452662000848 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 452662000849 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662000850 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 452662000851 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 452662000852 thiamine-monophosphate kinase; Region: thiL; TIGR01379 452662000853 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 452662000854 ATP binding site [chemical binding]; other site 452662000855 dimerization interface [polypeptide binding]; other site 452662000856 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 452662000857 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 452662000858 histidinol dehydrogenase; Region: hisD; TIGR00069 452662000859 NAD binding site [chemical binding]; other site 452662000860 dimerization interface [polypeptide binding]; other site 452662000861 product binding site; other site 452662000862 substrate binding site [chemical binding]; other site 452662000863 zinc binding site [ion binding]; other site 452662000864 catalytic residues [active] 452662000865 ATP phosphoribosyltransferase; Region: HisG; cl15266 452662000866 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 452662000867 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 452662000868 Ligand Binding Site [chemical binding]; other site 452662000869 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 452662000870 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 452662000871 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 452662000872 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 452662000873 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662000874 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 452662000875 Protein of unknown function (DUF445); Region: DUF445; pfam04286 452662000876 Gram-negative bacterial tonB protein; Region: TonB; cl10048 452662000877 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 452662000878 catalytic motif [active] 452662000879 Zn binding site [ion binding]; other site 452662000880 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 452662000881 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 452662000882 Lumazine binding domain; Region: Lum_binding; pfam00677 452662000883 Lumazine binding domain; Region: Lum_binding; pfam00677 452662000884 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 452662000885 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 452662000886 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cl00522 452662000887 dimerization interface [polypeptide binding]; other site 452662000888 active site 452662000889 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 452662000890 homopentamer interface [polypeptide binding]; other site 452662000891 active site 452662000892 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 452662000893 FMN binding site [chemical binding]; other site 452662000894 active site 452662000895 substrate binding site [chemical binding]; other site 452662000896 catalytic residue [active] 452662000897 Helix-turn-helix domains; Region: HTH; cl00088 452662000898 FeoA domain; Region: FeoA; cl00838 452662000899 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 452662000900 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 452662000901 G1 box; other site 452662000902 GTP/Mg2+ binding site [chemical binding]; other site 452662000903 Switch I region; other site 452662000904 G2 box; other site 452662000905 G3 box; other site 452662000906 Switch II region; other site 452662000907 G4 box; other site 452662000908 G5 box; other site 452662000909 Nucleoside recognition; Region: Gate; cl00486 452662000910 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 452662000911 Nucleoside recognition; Region: Gate; cl00486 452662000912 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 452662000913 dimer interface [polypeptide binding]; other site 452662000914 ssDNA binding site [nucleotide binding]; other site 452662000915 tetramer (dimer of dimers) interface [polypeptide binding]; other site 452662000916 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 452662000917 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 452662000918 purine monophosphate binding site [chemical binding]; other site 452662000919 dimer interface [polypeptide binding]; other site 452662000920 putative catalytic residues [active] 452662000921 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 452662000922 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 452662000923 hypothetical protein; Provisional; Region: PRK07208 452662000924 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662000925 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 452662000926 SelR domain; Region: SelR; pfam01641 452662000927 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 452662000928 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 452662000929 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662000930 Walker A/P-loop; other site 452662000931 ATP binding site [chemical binding]; other site 452662000932 Q-loop/lid; other site 452662000933 ABC transporter signature motif; other site 452662000934 Walker B; other site 452662000935 D-loop; other site 452662000936 H-loop/switch region; other site 452662000937 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 452662000938 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 452662000939 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 452662000940 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular adenosine...; Region: adenosine_kinase; cd01168 452662000941 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 452662000942 substrate binding site [chemical binding]; other site 452662000943 ATP binding site [chemical binding]; other site 452662000944 MatE; Region: MatE; cl10513 452662000945 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 452662000946 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662000947 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 452662000948 UGMP family protein; Validated; Region: PRK09604 452662000949 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 452662000950 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 452662000951 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl03189 452662000952 domain interfaces; other site 452662000953 active site 452662000954 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 452662000955 active site 452662000956 Mitochondrial inner membrane protein; Region: Mitofilin; pfam09731 452662000957 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 452662000958 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 452662000959 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 452662000960 active site 452662000961 HIGH motif; other site 452662000962 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 452662000963 active site 452662000964 KMSKS motif; other site 452662000965 NAD synthetase; Provisional; Region: PRK13981 452662000966 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 452662000967 multimer interface [polypeptide binding]; other site 452662000968 active site 452662000969 catalytic triad [active] 452662000970 protein interface 1 [polypeptide binding]; other site 452662000971 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 452662000972 homodimer interface [polypeptide binding]; other site 452662000973 NAD binding pocket [chemical binding]; other site 452662000974 ATP binding pocket [chemical binding]; other site 452662000975 Mg binding site [ion binding]; other site 452662000976 active-site loop [active] 452662000977 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 452662000978 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 452662000979 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 452662000980 active site 452662000981 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_14; cd08355 452662000982 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 452662000983 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 452662000984 active site 452662000985 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 452662000986 AMP-binding enzyme; Region: AMP-binding; cl15778 452662000987 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 452662000988 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 452662000989 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 452662000990 dimer interface [polypeptide binding]; other site 452662000991 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 452662000992 active site 452662000993 metal binding site [ion binding]; metal-binding site 452662000994 glutathione binding site [chemical binding]; other site 452662000995 Protein of unknown function (DUF541); Region: SIMPL; cl01077 452662000996 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 452662000997 binding surface 452662000998 Tetratricopeptide repeat; Region: TPR_16; pfam13432 452662000999 TPR motif; other site 452662001000 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 452662001001 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662001002 integrase; Provisional; Region: PRK09692 452662001003 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 452662001004 active site 452662001005 Int/Topo IB signature motif; other site 452662001006 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 452662001007 Gram-negative bacterial tonB protein; Region: TonB; cl10048 452662001008 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 452662001009 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 452662001010 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 452662001011 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 452662001012 active site 452662001013 NTP binding site [chemical binding]; other site 452662001014 metal binding triad [ion binding]; metal-binding site 452662001015 antibiotic binding site [chemical binding]; other site 452662001016 HEPN domain; Region: HEPN; cl00824 452662001017 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 452662001018 ParB-like nuclease domain; Region: ParBc; cl02129 452662001019 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 452662001020 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 452662001021 metal binding site [ion binding]; metal-binding site 452662001022 active site 452662001023 I-site; other site 452662001024 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 452662001025 Superfamily II helicase [General function prediction only]; Region: COG1204 452662001026 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 452662001027 ATP binding site [chemical binding]; other site 452662001028 putative Mg++ binding site [ion binding]; other site 452662001029 Domain of unknown function (DUF1837); Region: DUF1837; pfam08878 452662001030 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 452662001031 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 452662001032 Helix-turn-helix domains; Region: HTH; cl00088 452662001033 Domain of unknown function (DUF4166); Region: DUF4166; pfam13761 452662001034 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 452662001035 TIGR01777 family protein; Region: yfcH 452662001036 putative NAD(P) binding site [chemical binding]; other site 452662001037 putative active site [active] 452662001038 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 452662001039 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 452662001040 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 452662001041 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 452662001042 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 452662001043 N-terminal plug; other site 452662001044 ligand-binding site [chemical binding]; other site 452662001045 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 452662001046 Prostaglandin dehydrogenases; Region: PGDH; cd05288 452662001047 NAD(P) binding site [chemical binding]; other site 452662001048 substrate binding site [chemical binding]; other site 452662001049 dimer interface [polypeptide binding]; other site 452662001050 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 452662001051 substrate binding site [chemical binding]; other site 452662001052 oxyanion hole (OAH) forming residues; other site 452662001053 trimer interface [polypeptide binding]; other site 452662001054 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662001055 3-hydroxybutyryl-CoA dehydrogenase; Region: PLN02545 452662001056 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 452662001057 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 452662001058 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 452662001059 AMP-binding enzyme; Region: AMP-binding; cl15778 452662001060 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 452662001061 classical (c) SDRs; Region: SDR_c; cd05233 452662001062 NAD(P) binding site [chemical binding]; other site 452662001063 active site 452662001064 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 452662001065 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 452662001066 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 452662001067 substrate binding site [chemical binding]; other site 452662001068 oxyanion hole (OAH) forming residues; other site 452662001069 trimer interface [polypeptide binding]; other site 452662001070 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 452662001071 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 452662001072 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 452662001073 active site 452662001074 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 452662001075 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 452662001076 putative active site [active] 452662001077 putative substrate binding site [chemical binding]; other site 452662001078 ATP binding site [chemical binding]; other site 452662001079 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662001080 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662001081 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 452662001082 Major Facilitator Superfamily; Region: MFS_1; pfam07690 452662001083 putative substrate translocation pore; other site 452662001084 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662001085 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 452662001086 NAD(P) binding site [chemical binding]; other site 452662001087 active site 452662001088 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 452662001089 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 452662001090 active site 452662001091 acetyl-CoA acetyltransferase; Provisional; Region: PRK06504 452662001092 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 452662001093 dimer interface [polypeptide binding]; other site 452662001094 active site 452662001095 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 452662001096 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 452662001097 active site 452662001098 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 452662001099 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 452662001100 active site 452662001101 DUF35 OB-fold domain; Region: DUF35; pfam01796 452662001102 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 452662001103 DNA binding residues [nucleotide binding] 452662001104 dimerization interface [polypeptide binding]; other site 452662001105 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 452662001106 Helix-turn-helix domains; Region: HTH; cl00088 452662001107 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 452662001108 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662001109 NAD(P) binding site [chemical binding]; other site 452662001110 active site 452662001111 RmuC family; Region: RmuC; pfam02646 452662001112 hypothetical protein; Provisional; Region: PRK08912 452662001113 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 452662001114 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452662001115 homodimer interface [polypeptide binding]; other site 452662001116 catalytic residue [active] 452662001117 Restriction endonuclease; Region: Mrr_cat; cl00516 452662001118 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 452662001119 Family description; Region: UvrD_C_2; cl15862 452662001120 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 452662001121 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662001122 Walker A/P-loop; other site 452662001123 ATP binding site [chemical binding]; other site 452662001124 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 452662001125 putative active site [active] 452662001126 putative metal-binding site [ion binding]; other site 452662001127 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 452662001128 active site 452662001129 catalytic triad [active] 452662001130 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 452662001131 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 452662001132 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 452662001133 Walker A motif; other site 452662001134 ATP binding site [chemical binding]; other site 452662001135 Walker B motif; other site 452662001136 arginine finger; other site 452662001137 Cell division inhibitor SulA; Region: SulA; cl01880 452662001138 DNA Polymerase Y-family; Region: PolY_like; cd03468 452662001139 active site 452662001140 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 452662001141 DNA binding site [nucleotide binding] 452662001142 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 452662001143 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 452662001144 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 452662001145 generic binding surface I; other site 452662001146 generic binding surface II; other site 452662001147 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 452662001148 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 452662001149 GAF domain; Region: GAF; cl15785 452662001150 GAF domain; Region: GAF_2; pfam13185 452662001151 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 452662001152 metal binding site [ion binding]; metal-binding site 452662001153 active site 452662001154 I-site; other site 452662001155 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 452662001156 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 452662001157 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 452662001158 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 452662001159 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 452662001160 active site 452662001161 DNA binding site [nucleotide binding] 452662001162 Int/Topo IB signature motif; other site 452662001163 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 452662001164 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 452662001165 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 452662001166 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 452662001167 putative DNA binding site [nucleotide binding]; other site 452662001168 putative Zn2+ binding site [ion binding]; other site 452662001169 Low molecular weight phosphatase family; Region: LMWPc; cd00115 452662001170 active site 452662001171 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 452662001172 ArsC family; Region: ArsC; pfam03960 452662001173 catalytic residues [active] 452662001174 Membrane transport protein; Region: Mem_trans; cl09117 452662001175 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 452662001176 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 452662001177 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 452662001178 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 452662001179 dimer interface [polypeptide binding]; other site 452662001180 ssDNA binding site [nucleotide binding]; other site 452662001181 tetramer (dimer of dimers) interface [polypeptide binding]; other site 452662001182 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 452662001183 Protein of unknown function (DUF3768); Region: DUF3768; pfam12599 452662001184 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 452662001185 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 452662001186 P-loop; other site 452662001187 Magnesium ion binding site [ion binding]; other site 452662001188 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 452662001189 Magnesium ion binding site [ion binding]; other site 452662001190 ParB-like partition proteins; Region: parB_part; TIGR00180 452662001191 ParB-like nuclease domain; Region: ParBc; cl02129 452662001192 KorB domain; Region: KorB; pfam08535 452662001193 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 452662001194 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 452662001195 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 452662001196 Helix-turn-helix domains; Region: HTH; cl00088 452662001197 Winged helix-turn helix; Region: HTH_29; pfam13551 452662001198 Helix-turn-helix domains; Region: HTH; cl00088 452662001199 Integrase core domain; Region: rve; cl01316 452662001200 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 452662001201 Helix-turn-helix domains; Region: HTH; cl00088 452662001202 Integrase core domain; Region: rve; cl01316 452662001203 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 452662001204 Domain of unknown function (DUF955); Region: DUF955; cl01076 452662001205 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; cl02325 452662001206 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 452662001207 active site 452662001208 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; cl00358 452662001209 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_3; cd10035 452662001210 putative uracil binding site [chemical binding]; other site 452662001211 putative active site [active] 452662001212 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 452662001213 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662001214 Walker A motif; other site 452662001215 ATP binding site [chemical binding]; other site 452662001216 Walker B motif; other site 452662001217 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 452662001218 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 452662001219 Walker A motif; other site 452662001220 hexamer interface [polypeptide binding]; other site 452662001221 ATP binding site [chemical binding]; other site 452662001222 Walker B motif; other site 452662001223 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 452662001224 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 452662001225 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 452662001226 VirB7 interaction site; other site 452662001227 VirB8 protein; Region: VirB8; cl01500 452662001228 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 452662001229 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 452662001230 Type IV secretion system proteins; Region: T4SS; pfam07996 452662001231 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 452662001232 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 452662001233 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 452662001234 TrbC/VIRB2 family; Region: TrbC; cl01583 452662001235 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 452662001236 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 452662001237 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 452662001238 transcriptional regulator TraR; Provisional; Region: PRK13870 452662001239 Autoinducer binding domain; Region: Autoind_bind; pfam03472 452662001240 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 452662001241 DNA binding residues [nucleotide binding] 452662001242 dimerization interface [polypeptide binding]; other site 452662001243 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 452662001244 Autoinducer binding domain; Region: Autoind_bind; pfam03472 452662001245 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 452662001246 DNA binding residues [nucleotide binding] 452662001247 dimerization interface [polypeptide binding]; other site 452662001248 Phospholipid methyltransferase; Region: PEMT; cl00763 452662001249 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 452662001250 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 452662001251 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 452662001252 Beta-Casp domain; Region: Beta-Casp; cl12567 452662001253 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 452662001254 thymidine phosphorylase; Provisional; Region: PRK04350 452662001255 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 452662001256 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 452662001257 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 452662001258 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK07199 452662001259 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 452662001260 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 452662001261 active site 452662001262 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 452662001263 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 452662001264 active site 452662001265 phosphorylation site [posttranslational modification] 452662001266 intermolecular recognition site; other site 452662001267 dimerization interface [polypeptide binding]; other site 452662001268 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 452662001269 DNA binding residues [nucleotide binding] 452662001270 dimerization interface [polypeptide binding]; other site 452662001271 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 452662001272 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 452662001273 DNA binding residues [nucleotide binding] 452662001274 dimer interface [polypeptide binding]; other site 452662001275 copper binding site [ion binding]; other site 452662001276 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 452662001277 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 452662001278 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 452662001279 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 452662001280 active site 452662001281 motif I; other site 452662001282 motif II; other site 452662001283 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 452662001284 S-adenosylmethionine binding site [chemical binding]; other site 452662001285 Copper resistance protein D; Region: CopD; cl00563 452662001286 Bacterial Ig-like domain; Region: Big_5; cl01012 452662001287 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 452662001288 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 452662001289 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 452662001290 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 452662001291 DNA binding residues [nucleotide binding] 452662001292 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 452662001293 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 452662001294 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 452662001295 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 452662001296 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 452662001297 Domain of unknown function (DUF305); Region: DUF305; cl15795 452662001298 PAS domain; Region: PAS_9; pfam13426 452662001299 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 452662001300 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 452662001301 putative active site [active] 452662001302 heme pocket [chemical binding]; other site 452662001303 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 452662001304 dimer interface [polypeptide binding]; other site 452662001305 phosphorylation site [posttranslational modification] 452662001306 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 452662001307 ATP binding site [chemical binding]; other site 452662001308 Mg2+ binding site [ion binding]; other site 452662001309 G-X-G motif; other site 452662001310 response regulator FixJ; Provisional; Region: fixJ; PRK09390 452662001311 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 452662001312 active site 452662001313 phosphorylation site [posttranslational modification] 452662001314 intermolecular recognition site; other site 452662001315 dimerization interface [polypeptide binding]; other site 452662001316 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 452662001317 DNA binding residues [nucleotide binding] 452662001318 dimerization interface [polypeptide binding]; other site 452662001319 Response regulator receiver domain; Region: Response_reg; pfam00072 452662001320 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 452662001321 active site 452662001322 phosphorylation site [posttranslational modification] 452662001323 intermolecular recognition site; other site 452662001324 dimerization interface [polypeptide binding]; other site 452662001325 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 452662001326 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 452662001327 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 452662001328 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 452662001329 multiple promoter invertase; Provisional; Region: mpi; PRK13413 452662001330 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 452662001331 catalytic residues [active] 452662001332 catalytic nucleophile [active] 452662001333 Presynaptic Site I dimer interface [polypeptide binding]; other site 452662001334 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 452662001335 Synaptic Flat tetramer interface [polypeptide binding]; other site 452662001336 Synaptic Site I dimer interface [polypeptide binding]; other site 452662001337 DNA binding site [nucleotide binding] 452662001338 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 452662001339 DNA-binding interface [nucleotide binding]; DNA binding site 452662001340 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 452662001341 classical (c) SDRs; Region: SDR_c; cd05233 452662001342 NAD(P) binding site [chemical binding]; other site 452662001343 active site 452662001344 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662001345 NAD(P) binding site [chemical binding]; other site 452662001346 active site 452662001347 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 452662001348 RelB antitoxin; Region: RelB; cl01171 452662001349 Protein of unknown function, DUF; Region: DUF411; cl01142 452662001350 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 452662001351 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 452662001352 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 452662001353 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 452662001354 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 452662001355 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 452662001356 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 452662001357 NAD binding site [chemical binding]; other site 452662001358 substrate binding site [chemical binding]; other site 452662001359 catalytic Zn binding site [ion binding]; other site 452662001360 tetramer interface [polypeptide binding]; other site 452662001361 structural Zn binding site [ion binding]; other site 452662001362 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II and Staphylococcus aureus AldA1 (SACOL0154)-like; Region: ALDH_ACDHII_AcoD-like; cd07559 452662001363 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 452662001364 NAD(P) binding site [chemical binding]; other site 452662001365 catalytic residues [active] 452662001366 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 452662001367 dimerization interface [polypeptide binding]; other site 452662001368 Protein of unknown function (DUF1622); Region: DUF1622; cl01991 452662001369 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 452662001370 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_3; cd06217 452662001371 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 452662001372 FAD binding pocket [chemical binding]; other site 452662001373 FAD binding motif [chemical binding]; other site 452662001374 phosphate binding motif [ion binding]; other site 452662001375 beta-alpha-beta structure motif; other site 452662001376 NAD binding pocket [chemical binding]; other site 452662001377 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 452662001378 catalytic loop [active] 452662001379 iron binding site [ion binding]; other site 452662001380 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 452662001381 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 452662001382 DNA binding residues [nucleotide binding] 452662001383 dimer interface [polypeptide binding]; other site 452662001384 metal binding site [ion binding]; metal-binding site 452662001385 Outer membrane efflux protein; Region: OEP; pfam02321 452662001386 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 452662001387 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662001388 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 452662001389 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 452662001390 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 452662001391 may be target duplication site 452662001392 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 452662001393 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 452662001394 Coenzyme A binding pocket [chemical binding]; other site 452662001395 multiple promoter invertase; Provisional; Region: mpi; PRK13413 452662001396 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 452662001397 catalytic residues [active] 452662001398 catalytic nucleophile [active] 452662001399 Presynaptic Site I dimer interface [polypeptide binding]; other site 452662001400 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 452662001401 Synaptic Flat tetramer interface [polypeptide binding]; other site 452662001402 Synaptic Site I dimer interface [polypeptide binding]; other site 452662001403 DNA binding site [nucleotide binding] 452662001404 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 452662001405 DNA-binding interface [nucleotide binding]; DNA binding site 452662001406 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 452662001407 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 452662001408 may be target duplication site 452662001409 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 452662001410 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 452662001411 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 452662001412 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 452662001413 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 452662001414 Cation efflux family; Region: Cation_efflux; cl00316 452662001415 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 452662001416 putative hydrophobic ligand binding site [chemical binding]; other site 452662001417 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 452662001418 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 452662001419 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662001420 Outer membrane efflux protein; Region: OEP; pfam02321 452662001421 Outer membrane efflux protein; Region: OEP; pfam02321 452662001422 Cytochrome c; Region: Cytochrom_C; cl11414 452662001423 Iron permease FTR1 family; Region: FTR1; cl00475 452662001424 Cation efflux family; Region: Cation_efflux; cl00316 452662001425 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 452662001426 DNA binding residues [nucleotide binding] 452662001427 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 452662001428 dimer interface [polypeptide binding]; other site 452662001429 putative metal binding site [ion binding]; other site 452662001430 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 452662001431 catalytic motif [active] 452662001432 Catalytic residue [active] 452662001433 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 452662001434 protein binding site [polypeptide binding]; other site 452662001435 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 452662001436 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 452662001437 catalytic residues [active] 452662001438 catalytic nucleophile [active] 452662001439 Presynaptic Site I dimer interface [polypeptide binding]; other site 452662001440 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 452662001441 Synaptic Flat tetramer interface [polypeptide binding]; other site 452662001442 Synaptic Site I dimer interface [polypeptide binding]; other site 452662001443 DNA binding site [nucleotide binding] 452662001444 Helix-turn-helix domains; Region: HTH; cl00088 452662001445 DNA-binding interface [nucleotide binding]; DNA binding site 452662001446 may be target duplication site 452662001447 Helix-turn-helix domains; Region: HTH; cl00088 452662001448 Helix-turn-helix domains; Region: HTH; cl00088 452662001449 Integrase core domain; Region: rve; cl01316 452662001450 Integrase core domain; Region: rve_3; cl15866 452662001451 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 452662001452 AAA domain; Region: AAA_22; pfam13401 452662001453 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 452662001454 may be target duplication site 452662001455 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 452662001456 active site 452662001457 DNA binding site [nucleotide binding] 452662001458 Int/Topo IB signature motif; other site 452662001459 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 452662001460 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 452662001461 catalytic residues [active] 452662001462 catalytic nucleophile [active] 452662001463 Presynaptic Site I dimer interface [polypeptide binding]; other site 452662001464 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 452662001465 Synaptic Flat tetramer interface [polypeptide binding]; other site 452662001466 Synaptic Site I dimer interface [polypeptide binding]; other site 452662001467 DNA binding site [nucleotide binding] 452662001468 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 452662001469 DNA-binding interface [nucleotide binding]; DNA binding site 452662001470 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 452662001471 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 452662001472 Transposase domain (DUF772); Region: DUF772; cl15789 452662001473 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 452662001474 Transposase domain (DUF772); Region: DUF772; cl15789 452662001475 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 452662001476 classical (c) SDRs; Region: SDR_c; cd05233 452662001477 NAD(P) binding site [chemical binding]; other site 452662001478 active site 452662001479 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 452662001480 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 452662001481 [2Fe-2S] cluster binding site [ion binding]; other site 452662001482 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 452662001483 alpha subunit interface [polypeptide binding]; other site 452662001484 active site 452662001485 substrate binding site [chemical binding]; other site 452662001486 Fe binding site [ion binding]; other site 452662001487 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 452662001488 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 452662001489 classical (c) SDRs; Region: SDR_c; cd05233 452662001490 NAD(P) binding site [chemical binding]; other site 452662001491 active site 452662001492 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662001493 Integrase core domain; Region: rve; cl01316 452662001494 DDE domain; Region: DDE_Tnp_IS240; pfam13610 452662001495 Integrase core domain; Region: rve; cl01316 452662001496 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 452662001497 Fic family protein [Function unknown]; Region: COG3177 452662001498 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 452662001499 Fic/DOC family; Region: Fic; cl00960 452662001500 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 452662001501 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662001502 NAD(P) binding site [chemical binding]; other site 452662001503 active site 452662001504 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 452662001505 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 452662001506 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 452662001507 nucleophile elbow; other site 452662001508 Patatin phospholipase; Region: DUF3734; pfam12536 452662001509 Acetoacetate decarboxylase (ADC); Region: ADC; cl01919 452662001510 Phasin protein; Region: Phasin_2; cl11491 452662001511 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 452662001512 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 452662001513 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 452662001514 active site 452662001515 Int/Topo IB signature motif; other site 452662001516 GMP synthase; Reviewed; Region: guaA; PRK00074 452662001517 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 452662001518 AMP/PPi binding site [chemical binding]; other site 452662001519 candidate oxyanion hole; other site 452662001520 catalytic triad [active] 452662001521 potential glutamine specificity residues [chemical binding]; other site 452662001522 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 452662001523 ATP Binding subdomain [chemical binding]; other site 452662001524 Ligand Binding sites [chemical binding]; other site 452662001525 Dimerization subdomain; other site 452662001526 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 452662001527 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 452662001528 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 452662001529 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662001530 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 452662001531 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 452662001532 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 452662001533 alphaNTD homodimer interface [polypeptide binding]; other site 452662001534 alphaNTD - beta interaction site [polypeptide binding]; other site 452662001535 alphaNTD - beta' interaction site [polypeptide binding]; other site 452662001536 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 452662001537 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 452662001538 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 452662001539 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 452662001540 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 452662001541 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 452662001542 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 452662001543 Transcriptional regulator [Transcription]; Region: LysR; COG0583 452662001544 Helix-turn-helix domains; Region: HTH; cl00088 452662001545 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 452662001546 putative effector binding pocket; other site 452662001547 dimerization interface [polypeptide binding]; other site 452662001548 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 452662001549 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 452662001550 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 452662001551 Preprotein translocase subunit; Region: YajC; cl00806 452662001552 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 452662001553 Protein export membrane protein; Region: SecD_SecF; cl14618 452662001554 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 452662001555 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 452662001556 Protein export membrane protein; Region: SecD_SecF; cl14618 452662001557 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; cl00182 452662001558 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 452662001559 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 452662001560 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; cl15754 452662001561 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 452662001562 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 452662001563 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662001564 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 452662001565 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 452662001566 DNA-binding site [nucleotide binding]; DNA binding site 452662001567 FCD domain; Region: FCD; cl11656 452662001568 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 452662001569 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662001570 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 452662001571 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 452662001572 dimer interface [polypeptide binding]; other site 452662001573 NADP binding site [chemical binding]; other site 452662001574 catalytic residues [active] 452662001575 Dehydratase family; Region: ILVD_EDD; cl00340 452662001576 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 452662001577 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 452662001578 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 452662001579 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 452662001580 active site 452662001581 intersubunit interface [polypeptide binding]; other site 452662001582 catalytic residue [active] 452662001583 PAS fold; Region: PAS_4; pfam08448 452662001584 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 452662001585 PAS domain; Region: PAS_9; pfam13426 452662001586 putative active site [active] 452662001587 heme pocket [chemical binding]; other site 452662001588 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 452662001589 dimer interface [polypeptide binding]; other site 452662001590 phosphorylation site [posttranslational modification] 452662001591 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 452662001592 ATP binding site [chemical binding]; other site 452662001593 Mg2+ binding site [ion binding]; other site 452662001594 G-X-G motif; other site 452662001595 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 452662001596 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 452662001597 active site 452662001598 phosphorylation site [posttranslational modification] 452662001599 intermolecular recognition site; other site 452662001600 dimerization interface [polypeptide binding]; other site 452662001601 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 452662001602 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 452662001603 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 452662001604 23S rRNA interface [nucleotide binding]; other site 452662001605 L3 interface [polypeptide binding]; other site 452662001606 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 452662001607 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 452662001608 active site 452662001609 catalytic residues [active] 452662001610 DNA binding site [nucleotide binding] 452662001611 Int/Topo IB signature motif; other site 452662001612 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 452662001613 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662001614 Walker A/P-loop; other site 452662001615 ATP binding site [chemical binding]; other site 452662001616 Q-loop/lid; other site 452662001617 ABC transporter signature motif; other site 452662001618 Walker B; other site 452662001619 D-loop; other site 452662001620 H-loop/switch region; other site 452662001621 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 452662001622 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662001623 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662001624 multiple promoter invertase; Provisional; Region: mpi; PRK13413 452662001625 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 452662001626 catalytic residues [active] 452662001627 catalytic nucleophile [active] 452662001628 Presynaptic Site I dimer interface [polypeptide binding]; other site 452662001629 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 452662001630 Synaptic Flat tetramer interface [polypeptide binding]; other site 452662001631 Synaptic Site I dimer interface [polypeptide binding]; other site 452662001632 DNA binding site [nucleotide binding] 452662001633 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 452662001634 DNA-binding interface [nucleotide binding]; DNA binding site 452662001635 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662001636 ATP binding site [chemical binding]; other site 452662001637 putative Mg++ binding site [ion binding]; other site 452662001638 Transposase domain (DUF772); Region: DUF772; cl15789 452662001639 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 452662001640 Transposase domain (DUF772); Region: DUF772; cl15789 452662001641 Peptidase family M23; Region: Peptidase_M23; pfam01551 452662001642 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 452662001643 S17 interaction site [polypeptide binding]; other site 452662001644 S8 interaction site; other site 452662001645 16S rRNA interaction site [nucleotide binding]; other site 452662001646 streptomycin interaction site [chemical binding]; other site 452662001647 23S rRNA interaction site [nucleotide binding]; other site 452662001648 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 452662001649 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 452662001650 elongation factor G; Reviewed; Region: PRK00007 452662001651 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 452662001652 G1 box; other site 452662001653 putative GEF interaction site [polypeptide binding]; other site 452662001654 GTP/Mg2+ binding site [chemical binding]; other site 452662001655 Switch I region; other site 452662001656 G2 box; other site 452662001657 G3 box; other site 452662001658 Switch II region; other site 452662001659 G4 box; other site 452662001660 G5 box; other site 452662001661 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 452662001662 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 452662001663 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 452662001664 elongation factor Tu; Reviewed; Region: PRK00049 452662001665 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 452662001666 G1 box; other site 452662001667 GEF interaction site [polypeptide binding]; other site 452662001668 GTP/Mg2+ binding site [chemical binding]; other site 452662001669 Switch I region; other site 452662001670 G2 box; other site 452662001671 G3 box; other site 452662001672 Switch II region; other site 452662001673 G4 box; other site 452662001674 G5 box; other site 452662001675 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 452662001676 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 452662001677 Antibiotic Binding Site [chemical binding]; other site 452662001678 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 452662001679 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 452662001680 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 452662001681 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 452662001682 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 452662001683 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 452662001684 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 452662001685 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 452662001686 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 452662001687 putative translocon binding site; other site 452662001688 protein-rRNA interface [nucleotide binding]; other site 452662001689 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 452662001690 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 452662001691 G-X-X-G motif; other site 452662001692 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 452662001693 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 452662001694 23S rRNA interface [nucleotide binding]; other site 452662001695 5S rRNA interface [nucleotide binding]; other site 452662001696 putative antibiotic binding site [chemical binding]; other site 452662001697 L25 interface [polypeptide binding]; other site 452662001698 L27 interface [polypeptide binding]; other site 452662001699 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 452662001700 23S rRNA interface [nucleotide binding]; other site 452662001701 putative translocon interaction site; other site 452662001702 signal recognition particle (SRP54) interaction site; other site 452662001703 L23 interface [polypeptide binding]; other site 452662001704 trigger factor interaction site; other site 452662001705 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 452662001706 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 452662001707 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 452662001708 KOW motif; Region: KOW; cl00354 452662001709 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 452662001710 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 452662001711 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 452662001712 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 452662001713 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 452662001714 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 452662001715 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 452662001716 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 452662001717 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 452662001718 23S rRNA interface [nucleotide binding]; other site 452662001719 5S rRNA interface [nucleotide binding]; other site 452662001720 L27 interface [polypeptide binding]; other site 452662001721 L5 interface [polypeptide binding]; other site 452662001722 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 452662001723 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 452662001724 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 452662001725 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 452662001726 23S rRNA binding site [nucleotide binding]; other site 452662001727 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 452662001728 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 452662001729 SecY translocase; Region: SecY; pfam00344 452662001730 adenylate kinase; Reviewed; Region: adk; PRK00279 452662001731 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 452662001732 AMP-binding site [chemical binding]; other site 452662001733 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 452662001734 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 452662001735 hydrophobic ligand binding site; other site 452662001736 OpgC protein; Region: OpgC_C; cl00792 452662001737 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 452662001738 active site 452662001739 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 452662001740 MgtE intracellular N domain; Region: MgtE_N; cl15244 452662001741 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 452662001742 Divalent cation transporter; Region: MgtE; cl00786 452662001743 Protein of unknown function (DUF1489); Region: DUF1489; cl11570 452662001744 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 452662001745 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 452662001746 Fe-S cluster binding site [ion binding]; other site 452662001747 active site 452662001748 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 452662001749 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 452662001750 FeS/SAM binding site; other site 452662001751 CHASE3 domain; Region: CHASE3; cl05000 452662001752 sensory histidine kinase AtoS; Provisional; Region: PRK11360 452662001753 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 452662001754 ATP binding site [chemical binding]; other site 452662001755 Mg2+ binding site [ion binding]; other site 452662001756 G-X-G motif; other site 452662001757 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 452662001758 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 452662001759 active site 452662001760 phosphorylation site [posttranslational modification] 452662001761 intermolecular recognition site; other site 452662001762 dimerization interface [polypeptide binding]; other site 452662001763 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 452662001764 intersubunit interface [polypeptide binding]; other site 452662001765 active site 452662001766 Zn2+ binding site [ion binding]; other site 452662001767 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 452662001768 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 452662001769 Domain of unknown function DUF20; Region: UPF0118; pfam01594 452662001770 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 452662001771 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 452662001772 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 452662001773 Catalytic site [active] 452662001774 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 452662001775 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 452662001776 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cl00541 452662001777 active site 452662001778 hydrophilic channel; other site 452662001779 dimerization interface [polypeptide binding]; other site 452662001780 catalytic residues [active] 452662001781 active site lid [active] 452662001782 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 452662001783 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 452662001784 active site 452662001785 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 452662001786 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 452662001787 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 452662001788 Subunit I/III interface [polypeptide binding]; other site 452662001789 D-pathway; other site 452662001790 Subunit I/VIIc interface [polypeptide binding]; other site 452662001791 Subunit I/IV interface [polypeptide binding]; other site 452662001792 Subunit I/II interface [polypeptide binding]; other site 452662001793 Low-spin heme (heme a) binding site [chemical binding]; other site 452662001794 Subunit I/VIIa interface [polypeptide binding]; other site 452662001795 Subunit I/VIa interface [polypeptide binding]; other site 452662001796 Dimer interface; other site 452662001797 Putative water exit pathway; other site 452662001798 Binuclear center (heme a3/CuB) [ion binding]; other site 452662001799 K-pathway; other site 452662001800 Subunit I/Vb interface [polypeptide binding]; other site 452662001801 Putative proton exit pathway; other site 452662001802 Subunit I/VIb interface; other site 452662001803 Subunit I/VIc interface [polypeptide binding]; other site 452662001804 Electron transfer pathway; other site 452662001805 Subunit I/VIIIb interface [polypeptide binding]; other site 452662001806 Subunit I/VIIb interface [polypeptide binding]; other site 452662001807 UbiA prenyltransferase family; Region: UbiA; cl00337 452662001808 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 452662001809 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 452662001810 Subunit III/VIIa interface [polypeptide binding]; other site 452662001811 Phospholipid binding site [chemical binding]; other site 452662001812 Subunit I/III interface [polypeptide binding]; other site 452662001813 Subunit III/VIb interface [polypeptide binding]; other site 452662001814 Subunit III/VIa interface; other site 452662001815 Subunit III/Vb interface [polypeptide binding]; other site 452662001816 Protein of unknown function (DUF983); Region: DUF983; cl02211 452662001817 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; cl01321 452662001818 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 452662001819 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria; Region: Thr-synth_2; cd01560 452662001820 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452662001821 catalytic residue [active] 452662001822 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 452662001823 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 452662001824 S-adenosylmethionine binding site [chemical binding]; other site 452662001825 MarC family integral membrane protein; Region: MarC; cl00919 452662001826 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 452662001827 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 452662001828 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 452662001829 homodimer interface [polypeptide binding]; other site 452662001830 NADP binding site [chemical binding]; other site 452662001831 substrate binding site [chemical binding]; other site 452662001832 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 452662001833 YGGT family; Region: YGGT; cl00508 452662001834 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 452662001835 feedback inhibition sensing region; other site 452662001836 homohexameric interface [polypeptide binding]; other site 452662001837 nucleotide binding site [chemical binding]; other site 452662001838 N-acetyl-L-glutamate binding site [chemical binding]; other site 452662001839 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 452662001840 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 452662001841 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 452662001842 mechanosensitive channel MscS; Provisional; Region: PRK10334 452662001843 Mechanosensitive ion channel; Region: MS_channel; pfam00924 452662001844 cystathionine beta-lyase; Provisional; Region: PRK09028 452662001845 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 452662001846 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 452662001847 catalytic residue [active] 452662001848 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 452662001849 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 452662001850 active site residue [active] 452662001851 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 452662001852 active site residue [active] 452662001853 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 452662001854 Peptidase family M1; Region: Peptidase_M1; pfam01433 452662001855 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 452662001856 Zn binding site [ion binding]; other site 452662001857 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 452662001858 oligopeptide transporters, OPT superfamily; Region: OPT_sfam; TIGR00728 452662001859 OPT oligopeptide transporter protein; Region: OPT; cl14607 452662001860 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_like_7; cd04502 452662001861 active site 452662001862 catalytic triad [active] 452662001863 oxyanion hole [active] 452662001864 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; cl01548 452662001865 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 452662001866 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662001867 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 452662001868 putative active site [active] 452662001869 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 452662001870 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 452662001871 ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two...; Region: ABCC_bacteriocin_exporters; cd03245 452662001872 Walker A/P-loop; other site 452662001873 ATP binding site [chemical binding]; other site 452662001874 Q-loop/lid; other site 452662001875 ABC transporter signature motif; other site 452662001876 Walker B; other site 452662001877 D-loop; other site 452662001878 H-loop/switch region; other site 452662001879 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 452662001880 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 452662001881 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 452662001882 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 452662001883 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 452662001884 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 452662001885 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 452662001886 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 452662001887 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 452662001888 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 452662001889 Spore Coat Protein U domain; Region: SCPU; cl02253 452662001890 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 452662001891 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 452662001892 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 452662001893 PapC C-terminal domain; Region: PapC_C; pfam13953 452662001894 Spore Coat Protein U domain; Region: SCPU; cl02253 452662001895 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 452662001896 metal binding site [ion binding]; metal-binding site 452662001897 active site 452662001898 I-site; other site 452662001899 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 452662001900 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 452662001901 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 452662001902 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 452662001903 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 452662001904 Cytochrome c; Region: Cytochrom_C; cl11414 452662001905 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 452662001906 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 452662001907 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 452662001908 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 452662001909 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662001910 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 452662001911 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 452662001912 DXD motif; other site 452662001913 cellulose synthase; Region: PLN02189 452662001914 PilZ domain; Region: PilZ; cl01260 452662001915 Transcriptional regulators [Transcription]; Region: PurR; COG1609 452662001916 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 452662001917 DNA binding site [nucleotide binding] 452662001918 domain linker motif; other site 452662001919 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 452662001920 putative dimerization interface [polypeptide binding]; other site 452662001921 putative ligand binding site [chemical binding]; other site 452662001922 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 452662001923 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 452662001924 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 452662001925 ATP binding site [chemical binding]; other site 452662001926 Mg2+ binding site [ion binding]; other site 452662001927 G-X-G motif; other site 452662001928 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 452662001929 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 452662001930 active site 452662001931 phosphorylation site [posttranslational modification] 452662001932 intermolecular recognition site; other site 452662001933 dimerization interface [polypeptide binding]; other site 452662001934 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 452662001935 DNA binding site [nucleotide binding] 452662001936 PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal)...; Region: PDZ_signaling; cd00992 452662001937 protein binding site [polypeptide binding]; other site 452662001938 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 452662001939 active site 452662001940 Catalytic NodB homology domain of uncharacterized bacterial glycosyl transferase, group 2-like family proteins; Region: CE4_GT2-like; cd10962 452662001941 NodB motif; other site 452662001942 putative active site [active] 452662001943 putative catalytic site [active] 452662001944 putative Zn binding site [ion binding]; other site 452662001945 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 452662001946 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 452662001947 DXD motif; other site 452662001948 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 452662001949 putative FMN binding site [chemical binding]; other site 452662001950 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 452662001951 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 452662001952 PLD-like domain; Region: PLDc_2; pfam13091 452662001953 putative active site [active] 452662001954 catalytic site [active] 452662001955 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 452662001956 PLD-like domain; Region: PLDc_2; pfam13091 452662001957 putative active site [active] 452662001958 catalytic site [active] 452662001959 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 452662001960 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 452662001961 glycerol kinase; Region: glycerol_kin; TIGR01311 452662001962 N- and C-terminal domain interface [polypeptide binding]; other site 452662001963 active site 452662001964 MgATP binding site [chemical binding]; other site 452662001965 catalytic site [active] 452662001966 metal binding site [ion binding]; metal-binding site 452662001967 glycerol binding site [chemical binding]; other site 452662001968 homotetramer interface [polypeptide binding]; other site 452662001969 homodimer interface [polypeptide binding]; other site 452662001970 FBP binding site [chemical binding]; other site 452662001971 protein IIAGlc interface [polypeptide binding]; other site 452662001972 MASE1; Region: MASE1; pfam05231 452662001973 PAS domain S-box; Region: sensory_box; TIGR00229 452662001974 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 452662001975 putative active site [active] 452662001976 heme pocket [chemical binding]; other site 452662001977 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 452662001978 metal binding site [ion binding]; metal-binding site 452662001979 active site 452662001980 I-site; other site 452662001981 MerC mercury resistance protein; Region: MerC; cl03934 452662001982 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 452662001983 putative active site [active] 452662001984 homoserine dehydrogenase; Provisional; Region: PRK06349 452662001985 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662001986 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 452662001987 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 452662001988 Gram-negative bacterial tonB protein; Region: TonB; cl10048 452662001989 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 452662001990 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 452662001991 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 452662001992 PilZ domain; Region: PilZ; cl01260 452662001993 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662001994 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 452662001995 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662001996 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 452662001997 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 452662001998 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 452662001999 Walker A/P-loop; other site 452662002000 ATP binding site [chemical binding]; other site 452662002001 Q-loop/lid; other site 452662002002 ABC transporter signature motif; other site 452662002003 Walker B; other site 452662002004 D-loop; other site 452662002005 H-loop/switch region; other site 452662002006 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 452662002007 active site 452662002008 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 452662002009 Mechanosensitive ion channel; Region: MS_channel; pfam00924 452662002010 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 452662002011 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 452662002012 active site 452662002013 DNA binding site [nucleotide binding] 452662002014 Int/Topo IB signature motif; other site 452662002015 catalytic residues [active] 452662002016 O-Antigen ligase; Region: Wzy_C; cl04850 452662002017 PEP-CTERM/exosortase A-associated glycosyltransferase, Daro_2409 family; Region: stp3; TIGR04063 452662002018 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 452662002019 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 452662002020 Catalytic site [active] 452662002021 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 452662002022 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 452662002023 XdhC Rossmann domain; Region: XdhC_C; pfam13478 452662002024 Protein of unknown function (DUF466); Region: DUF466; cl01082 452662002025 carbon starvation protein A; Provisional; Region: PRK15015 452662002026 Carbon starvation protein CstA; Region: CstA; pfam02554 452662002027 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 452662002028 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 452662002029 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 452662002030 PhnA protein; Region: PhnA; pfam03831 452662002031 Predicted GTPase [General function prediction only]; Region: COG0218 452662002032 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 452662002033 G1 box; other site 452662002034 GTP/Mg2+ binding site [chemical binding]; other site 452662002035 Switch I region; other site 452662002036 G2 box; other site 452662002037 G3 box; other site 452662002038 Switch II region; other site 452662002039 G4 box; other site 452662002040 G5 box; other site 452662002041 membrane protein insertase; Provisional; Region: PRK01318 452662002042 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 452662002043 Haemolytic domain; Region: Haemolytic; cl00506 452662002044 Ribonuclease P; Region: Ribonuclease_P; cl00457 452662002045 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 452662002046 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 452662002047 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 452662002048 catalytic residues [active] 452662002049 Peptidase family M48; Region: Peptidase_M48; cl12018 452662002050 TPR repeat; Region: TPR_11; pfam13414 452662002051 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 452662002052 TPR motif; other site 452662002053 binding surface 452662002054 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 452662002055 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 452662002056 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 452662002057 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 452662002058 active site 452662002059 metal binding site [ion binding]; metal-binding site 452662002060 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 452662002061 Transglycosylase; Region: Transgly; cl07896 452662002062 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 452662002063 Protein of unknown function DUF72; Region: DUF72; cl00777 452662002064 PspC domain; Region: PspC; cl00864 452662002065 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 452662002066 putative active site pocket [active] 452662002067 dimerization interface [polypeptide binding]; other site 452662002068 putative catalytic residue [active] 452662002069 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 452662002070 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 452662002071 catalytic triad [active] 452662002072 peptide chain release factor 2; Validated; Region: prfB; PRK00578 452662002073 RF-1 domain; Region: RF-1; cl02875 452662002074 RF-1 domain; Region: RF-1; cl02875 452662002075 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 452662002076 S-adenosylmethionine binding site [chemical binding]; other site 452662002077 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 452662002078 Protein of unknown function, DUF485; Region: DUF485; cl01231 452662002079 Sodium:solute symporter family; Region: SSF; cl00456 452662002080 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 452662002081 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 452662002082 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 452662002083 G1 box; other site 452662002084 putative GEF interaction site [polypeptide binding]; other site 452662002085 GTP/Mg2+ binding site [chemical binding]; other site 452662002086 Switch I region; other site 452662002087 G2 box; other site 452662002088 G3 box; other site 452662002089 Switch II region; other site 452662002090 G4 box; other site 452662002091 G5 box; other site 452662002092 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 452662002093 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 452662002094 Peptidase family M48; Region: Peptidase_M48; cl12018 452662002095 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 452662002096 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 452662002097 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 452662002098 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 452662002099 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 452662002100 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 452662002101 active site 452662002102 dimer interface [polypeptide binding]; other site 452662002103 motif 1; other site 452662002104 motif 2; other site 452662002105 motif 3; other site 452662002106 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 452662002107 anticodon binding site; other site 452662002108 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 452662002109 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 452662002110 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 452662002111 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 452662002112 metal binding site [ion binding]; metal-binding site 452662002113 active site 452662002114 I-site; other site 452662002115 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 452662002116 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 452662002117 active site 452662002118 HIGH motif; other site 452662002119 nucleotide binding site [chemical binding]; other site 452662002120 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 452662002121 active site 452662002122 KMSKS motif; other site 452662002123 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 452662002124 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 452662002125 active site 452662002126 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 452662002127 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 452662002128 ligand binding site [chemical binding]; other site 452662002129 flexible hinge region; other site 452662002130 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 452662002131 putative switch regulator; other site 452662002132 non-specific DNA interactions [nucleotide binding]; other site 452662002133 DNA binding site [nucleotide binding] 452662002134 sequence specific DNA binding site [nucleotide binding]; other site 452662002135 putative cAMP binding site [chemical binding]; other site 452662002136 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 452662002137 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 452662002138 hinge; other site 452662002139 active site 452662002140 GAF domain; Region: GAF; cl15785 452662002141 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 452662002142 PAS fold; Region: PAS_3; pfam08447 452662002143 putative active site [active] 452662002144 heme pocket [chemical binding]; other site 452662002145 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 452662002146 Histidine kinase; Region: HisKA_2; cl06527 452662002147 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 452662002148 response regulator; Provisional; Region: PRK13435 452662002149 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 452662002150 minor groove reading motif; other site 452662002151 helix-hairpin-helix signature motif; other site 452662002152 substrate binding pocket [chemical binding]; other site 452662002153 active site 452662002154 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 452662002155 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 452662002156 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 452662002157 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 452662002158 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 452662002159 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 452662002160 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 452662002161 Fibronectin type III-like domain; Region: Fn3-like; cl15273 452662002162 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 452662002163 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 452662002164 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 452662002165 ABC transporter; Region: ABC_tran_2; pfam12848 452662002166 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 452662002167 Domain of unknown function DUF20; Region: UPF0118; pfam01594 452662002168 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 452662002169 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 452662002170 YceI-like domain; Region: YceI; cl01001 452662002171 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 452662002172 active site 452662002173 Protein of unknown function (DUF983); Region: DUF983; cl02211 452662002174 aminodeoxychorismate synthase; Provisional; Region: PRK07508 452662002175 chorismate binding enzyme; Region: Chorismate_bind; cl10555 452662002176 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 452662002177 substrate-cofactor binding pocket; other site 452662002178 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452662002179 catalytic residue [active] 452662002180 aspartate aminotransferase; Provisional; Region: PRK05764 452662002181 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 452662002182 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452662002183 homodimer interface [polypeptide binding]; other site 452662002184 catalytic residue [active] 452662002185 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 452662002186 2-enoyl thioester reductase (ETR) like proteins, child 1; Region: ETR_like_1; cd08291 452662002187 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 452662002188 NADP binding site [chemical binding]; other site 452662002189 dimer interface [polypeptide binding]; other site 452662002190 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 452662002191 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 452662002192 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 452662002193 active site 452662002194 ATP binding site [chemical binding]; other site 452662002195 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 452662002196 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 452662002197 S-adenosylmethionine binding site [chemical binding]; other site 452662002198 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 452662002199 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 452662002200 DNA binding site [nucleotide binding] 452662002201 catalytic residue [active] 452662002202 H2TH interface [polypeptide binding]; other site 452662002203 putative catalytic residues [active] 452662002204 turnover-facilitating residue; other site 452662002205 intercalation triad [nucleotide binding]; other site 452662002206 8OG recognition residue [nucleotide binding]; other site 452662002207 putative reading head residues; other site 452662002208 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 452662002209 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 452662002210 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 452662002211 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 452662002212 DnaA N-terminal domain; Region: DnaA_N; pfam11638 452662002213 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 452662002214 Walker A motif; other site 452662002215 ATP binding site [chemical binding]; other site 452662002216 Walker B motif; other site 452662002217 arginine finger; other site 452662002218 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 452662002219 DnaA box-binding interface [nucleotide binding]; other site 452662002220 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 452662002221 active site 452662002222 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 452662002223 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 452662002224 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 452662002225 active site 452662002226 HIGH motif; other site 452662002227 dimer interface [polypeptide binding]; other site 452662002228 KMSKS motif; other site 452662002229 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 452662002230 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 452662002231 SecA binding site; other site 452662002232 Preprotein binding site; other site 452662002233 Tim44-like domain; Region: Tim44; cl09208 452662002234 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 452662002235 MltA specific insert domain; Region: MltA; cl08398 452662002236 3D domain; Region: 3D; cl01439 452662002237 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 452662002238 Smr domain; Region: Smr; cl02619 452662002239 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 452662002240 metal binding site [ion binding]; metal-binding site 452662002241 active site 452662002242 I-site; other site 452662002243 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 452662002244 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 452662002245 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 452662002246 metal binding site [ion binding]; metal-binding site 452662002247 dimer interface [polypeptide binding]; other site 452662002248 Cupin domain; Region: Cupin_2; cl09118 452662002249 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 452662002250 dimer interface [polypeptide binding]; other site 452662002251 catalytic triad [active] 452662002252 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 452662002253 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 452662002254 glutamine binding [chemical binding]; other site 452662002255 catalytic triad [active] 452662002256 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 452662002257 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 452662002258 active site 452662002259 ribulose/triose binding site [chemical binding]; other site 452662002260 phosphate binding site [ion binding]; other site 452662002261 substrate (anthranilate) binding pocket [chemical binding]; other site 452662002262 product (indole) binding pocket [chemical binding]; other site 452662002263 MoaC family. 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 derivative to the precursor...; Region: MoaC; cl00242 452662002264 trimer interface [polypeptide binding]; other site 452662002265 dimer interface [polypeptide binding]; other site 452662002266 putative active site [active] 452662002267 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 452662002268 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 452662002269 dimer interface [polypeptide binding]; other site 452662002270 putative functional site; other site 452662002271 putative MPT binding site; other site 452662002272 LexA repressor; Validated; Region: PRK00215 452662002273 Helix-turn-helix domains; Region: HTH; cl00088 452662002274 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 452662002275 Catalytic site [active] 452662002276 Competence protein; Region: Competence; cl00471 452662002277 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 452662002278 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 452662002279 catalytic residues [active] 452662002280 catalytic nucleophile [active] 452662002281 Recombinase; Region: Recombinase; pfam07508 452662002282 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 452662002283 Terminase-like family; Region: Terminase_6; pfam03237 452662002284 Phage terminase large subunit; Region: Terminase_3; cl12054 452662002285 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 452662002286 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 452662002287 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 452662002288 tape measure domain; Region: tape_meas_nterm; TIGR02675 452662002289 multiple promoter invertase; Provisional; Region: mpi; PRK13413 452662002290 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 452662002291 catalytic residues [active] 452662002292 catalytic nucleophile [active] 452662002293 Presynaptic Site I dimer interface [polypeptide binding]; other site 452662002294 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 452662002295 Synaptic Flat tetramer interface [polypeptide binding]; other site 452662002296 Synaptic Site I dimer interface [polypeptide binding]; other site 452662002297 DNA binding site [nucleotide binding] 452662002298 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 452662002299 DNA-binding interface [nucleotide binding]; DNA binding site 452662002300 Predicted transcriptional regulator [Transcription]; Region: COG2944 452662002301 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 452662002302 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 452662002303 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 452662002304 TIR domain; Region: TIR_2; cl15770 452662002305 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 452662002306 Competence protein; Region: Competence; cl00471 452662002307 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 452662002308 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 452662002309 active site 452662002310 HIGH motif; other site 452662002311 nucleotide binding site [chemical binding]; other site 452662002312 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 452662002313 active site 452662002314 KMSKS motif; other site 452662002315 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 452662002316 dimer interface [polypeptide binding]; other site 452662002317 Citrate synthase; Region: Citrate_synt; pfam00285 452662002318 active site 452662002319 citrylCoA binding site [chemical binding]; other site 452662002320 NADH binding [chemical binding]; other site 452662002321 cationic pore residues; other site 452662002322 oxalacetate/citrate binding site [chemical binding]; other site 452662002323 coenzyme A binding site [chemical binding]; other site 452662002324 catalytic triad [active] 452662002325 recombination protein F; Reviewed; Region: recF; PRK00064 452662002326 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662002327 Walker A/P-loop; other site 452662002328 ATP binding site [chemical binding]; other site 452662002329 Q-loop/lid; other site 452662002330 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662002331 ABC transporter signature motif; other site 452662002332 Walker B; other site 452662002333 D-loop; other site 452662002334 H-loop/switch region; other site 452662002335 NlpC/P60 family; Region: NLPC_P60; cl11438 452662002336 NlpC/P60 family; Region: NLPC_P60; cl11438 452662002337 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 452662002338 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 452662002339 Predicted membrane protein [Function unknown]; Region: COG3766 452662002340 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 452662002341 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 452662002342 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 452662002343 S-adenosylmethionine binding site [chemical binding]; other site 452662002344 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 452662002345 Moco binding site; other site 452662002346 metal coordination site [ion binding]; other site 452662002347 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 452662002348 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 452662002349 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 452662002350 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 452662002351 DNA polymerase III subunit beta; Validated; Region: PRK05643 452662002352 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 452662002353 putative DNA binding surface [nucleotide binding]; other site 452662002354 dimer interface [polypeptide binding]; other site 452662002355 beta-clamp/clamp loader binding surface; other site 452662002356 beta-clamp/translesion DNA polymerase binding surface; other site 452662002357 PAS domain; Region: PAS_9; pfam13426 452662002358 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 452662002359 putative active site [active] 452662002360 heme pocket [chemical binding]; other site 452662002361 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 452662002362 metal binding site [ion binding]; metal-binding site 452662002363 active site 452662002364 I-site; other site 452662002365 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 452662002366 PilZ domain; Region: PilZ; cl01260 452662002367 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 452662002368 Integrase core domain; Region: rve; cl01316 452662002369 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 452662002370 ApbE family; Region: ApbE; cl00643 452662002371 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 452662002372 FlgD Ig-like domain; Region: FlgD_ig; cl15790 452662002373 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 452662002374 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 452662002375 VacJ like lipoprotein; Region: VacJ; cl01073 452662002376 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 452662002377 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662002378 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 452662002379 Post-segregation antitoxin CcdA; Region: CcdA; cl02188 452662002380 CcdB protein; Region: CcdB; cl03380 452662002381 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 452662002382 aspartate racemase; Region: asp_race; TIGR00035 452662002383 PilZ domain; Region: PilZ; cl01260 452662002384 Response regulator receiver domain; Region: Response_reg; pfam00072 452662002385 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 452662002386 active site 452662002387 phosphorylation site [posttranslational modification] 452662002388 intermolecular recognition site; other site 452662002389 dimerization interface [polypeptide binding]; other site 452662002390 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 452662002391 DNA binding residues [nucleotide binding] 452662002392 Sodium:solute symporter family; Region: SSF; cl00456 452662002393 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 452662002394 dimer interface [polypeptide binding]; other site 452662002395 phosphorylation site [posttranslational modification] 452662002396 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 452662002397 ATP binding site [chemical binding]; other site 452662002398 Mg2+ binding site [ion binding]; other site 452662002399 G-X-G motif; other site 452662002400 Response regulator receiver domain; Region: Response_reg; pfam00072 452662002401 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 452662002402 active site 452662002403 phosphorylation site [posttranslational modification] 452662002404 intermolecular recognition site; other site 452662002405 dimerization interface [polypeptide binding]; other site 452662002406 HupE / UreJ protein; Region: HupE_UreJ; cl01011 452662002407 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662002408 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 452662002409 UreF; Region: UreF; pfam01730 452662002410 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 452662002411 dimer interface [polypeptide binding]; other site 452662002412 catalytic residues [active] 452662002413 urease subunit alpha; Reviewed; Region: ureC; PRK13207 452662002414 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 452662002415 subunit interactions [polypeptide binding]; other site 452662002416 active site 452662002417 flap region; other site 452662002418 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 452662002419 gamma-beta subunit interface [polypeptide binding]; other site 452662002420 alpha-beta subunit interface [polypeptide binding]; other site 452662002421 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 452662002422 alpha-gamma subunit interface [polypeptide binding]; other site 452662002423 beta-gamma subunit interface [polypeptide binding]; other site 452662002424 UreD urease accessory protein; Region: UreD; cl00530 452662002425 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 452662002426 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 452662002427 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 452662002428 putative ligand binding site [chemical binding]; other site 452662002429 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 452662002430 TM-ABC transporter signature motif; other site 452662002431 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 452662002432 TM-ABC transporter signature motif; other site 452662002433 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 452662002434 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 452662002435 Walker A/P-loop; other site 452662002436 ATP binding site [chemical binding]; other site 452662002437 Q-loop/lid; other site 452662002438 ABC transporter signature motif; other site 452662002439 Walker B; other site 452662002440 D-loop; other site 452662002441 H-loop/switch region; other site 452662002442 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 452662002443 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 452662002444 Walker A/P-loop; other site 452662002445 ATP binding site [chemical binding]; other site 452662002446 Q-loop/lid; other site 452662002447 ABC transporter signature motif; other site 452662002448 Walker B; other site 452662002449 D-loop; other site 452662002450 H-loop/switch region; other site 452662002451 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 452662002452 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; cl15754 452662002453 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 452662002454 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 452662002455 active site 452662002456 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 452662002457 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 452662002458 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 452662002459 YCII-related domain; Region: YCII; cl00999 452662002460 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 452662002461 Helix-turn-helix domains; Region: HTH; cl00088 452662002462 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662002463 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662002464 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 452662002465 putative metal binding site [ion binding]; other site 452662002466 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 452662002467 putative metal binding site [ion binding]; other site 452662002468 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 452662002469 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 452662002470 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 452662002471 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 452662002472 active site 452662002473 catalytic residues [active] 452662002474 Protein of unknown function (DUF461); Region: DUF461; cl01071 452662002475 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 452662002476 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 452662002477 chaperone protein DnaJ; Provisional; Region: PRK10767 452662002478 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 452662002479 HSP70 interaction site [polypeptide binding]; other site 452662002480 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 452662002481 substrate binding site [polypeptide binding]; other site 452662002482 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 452662002483 Zn binding sites [ion binding]; other site 452662002484 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 452662002485 dimer interface [polypeptide binding]; other site 452662002486 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 452662002487 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 452662002488 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 452662002489 active site 452662002490 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 452662002491 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 452662002492 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 452662002493 DNA binding residues [nucleotide binding] 452662002494 putative dimer interface [polypeptide binding]; other site 452662002495 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 452662002496 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 452662002497 N-terminal plug; other site 452662002498 ligand-binding site [chemical binding]; other site 452662002499 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 452662002500 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 452662002501 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 452662002502 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 452662002503 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662002504 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 452662002505 putative ADP-binding pocket [chemical binding]; other site 452662002506 Gram-negative bacterial tonB protein; Region: TonB; cl10048 452662002507 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 452662002508 Catalytic site; other site 452662002509 Abi-like protein; Region: Abi_2; cl01988 452662002510 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 452662002511 non-specific DNA binding site [nucleotide binding]; other site 452662002512 salt bridge; other site 452662002513 sequence-specific DNA binding site [nucleotide binding]; other site 452662002514 Integrase core domain; Region: rve; cl01316 452662002515 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 452662002516 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 452662002517 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 452662002518 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 452662002519 Int/Topo IB signature motif; other site 452662002520 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 452662002521 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 452662002522 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662002523 Walker A motif; other site 452662002524 ATP binding site [chemical binding]; other site 452662002525 Walker B motif; other site 452662002526 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 452662002527 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 452662002528 ATP binding site [chemical binding]; other site 452662002529 Mg2+ binding site [ion binding]; other site 452662002530 G-X-G motif; other site 452662002531 YcfA-like protein; Region: YcfA; cl00752 452662002532 Domain of unknown function (DUF1902); Region: DUF1902; pfam08972 452662002533 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 452662002534 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 452662002535 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 452662002536 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 452662002537 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 452662002538 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 452662002539 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 452662002540 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 452662002541 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 452662002542 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 452662002543 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 452662002544 DNA binding site [nucleotide binding] 452662002545 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 452662002546 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 452662002547 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 452662002548 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 452662002549 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 452662002550 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 452662002551 RPB11 interaction site [polypeptide binding]; other site 452662002552 RPB12 interaction site [polypeptide binding]; other site 452662002553 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 452662002554 RPB3 interaction site [polypeptide binding]; other site 452662002555 RPB1 interaction site [polypeptide binding]; other site 452662002556 RPB11 interaction site [polypeptide binding]; other site 452662002557 RPB10 interaction site [polypeptide binding]; other site 452662002558 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 452662002559 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 452662002560 N-terminal plug; other site 452662002561 ligand-binding site [chemical binding]; other site 452662002562 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 452662002563 DNA binding residues [nucleotide binding] 452662002564 dimerization interface [polypeptide binding]; other site 452662002565 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 452662002566 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 452662002567 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 452662002568 dimer interface [polypeptide binding]; other site 452662002569 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452662002570 catalytic residue [active] 452662002571 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 452662002572 putative substrate translocation pore; other site 452662002573 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 452662002574 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662002575 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 452662002576 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 452662002577 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 452662002578 protein binding site [polypeptide binding]; other site 452662002579 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 452662002580 protein binding site [polypeptide binding]; other site 452662002581 HflC protein; Region: hflC; TIGR01932 452662002582 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 452662002583 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 452662002584 HflK protein; Region: hflK; TIGR01933 452662002585 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 452662002586 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662002587 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 452662002588 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 452662002589 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 452662002590 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 452662002591 ferrochelatase; Reviewed; Region: hemH; PRK00035 452662002592 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 452662002593 C-terminal domain interface [polypeptide binding]; other site 452662002594 active site 452662002595 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 452662002596 active site 452662002597 N-terminal domain interface [polypeptide binding]; other site 452662002598 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 452662002599 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 452662002600 NAD(P) binding site [chemical binding]; other site 452662002601 homotetramer interface [polypeptide binding]; other site 452662002602 homodimer interface [polypeptide binding]; other site 452662002603 active site 452662002604 Ribbon-helix-helix domain; Region: RHH_4; cl01775 452662002605 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 452662002606 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662002607 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 452662002608 Gram-negative bacterial tonB protein; Region: TonB; cl10048 452662002609 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 452662002610 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 452662002611 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 452662002612 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662002613 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 452662002614 ADP-ribose binding site [chemical binding]; other site 452662002615 dimer interface [polypeptide binding]; other site 452662002616 active site 452662002617 nudix motif; other site 452662002618 metal binding site [ion binding]; metal-binding site 452662002619 Repair protein; Region: Repair_PSII; cl01535 452662002620 Repair protein; Region: Repair_PSII; cl01535 452662002621 LemA family; Region: LemA; cl00742 452662002622 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 452662002623 Transposase domain (DUF772); Region: DUF772; cl15789 452662002624 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 452662002625 Transposase domain (DUF772); Region: DUF772; cl15789 452662002626 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 452662002627 putative binding surface; other site 452662002628 active site 452662002629 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 452662002630 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 452662002631 ATP binding site [chemical binding]; other site 452662002632 Mg2+ binding site [ion binding]; other site 452662002633 G-X-G motif; other site 452662002634 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 452662002635 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 452662002636 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 452662002637 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 452662002638 Response regulator receiver domain; Region: Response_reg; pfam00072 452662002639 active site 452662002640 phosphorylation site [posttranslational modification] 452662002641 intermolecular recognition site; other site 452662002642 dimerization interface [polypeptide binding]; other site 452662002643 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 452662002644 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 452662002645 active site 452662002646 phosphorylation site [posttranslational modification] 452662002647 intermolecular recognition site; other site 452662002648 CheB methylesterase; Region: CheB_methylest; pfam01339 452662002649 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 452662002650 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662002651 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 452662002652 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 452662002653 amidase catalytic site [active] 452662002654 Zn binding residues [ion binding]; other site 452662002655 substrate binding site [chemical binding]; other site 452662002656 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 452662002657 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 452662002658 putative catalytic site [active] 452662002659 putative metal binding site [ion binding]; other site 452662002660 putative phosphate binding site [ion binding]; other site 452662002661 DNA repair protein RadA; Provisional; Region: PRK11823 452662002662 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 452662002663 Walker A motif/ATP binding site; other site 452662002664 ATP binding site [chemical binding]; other site 452662002665 Walker B motif; other site 452662002666 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 452662002667 Colicin V production protein; Region: Colicin_V; cl00567 452662002668 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 452662002669 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 452662002670 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 452662002671 active site 452662002672 signal recognition particle protein; Provisional; Region: PRK10867 452662002673 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 452662002674 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 452662002675 P loop; other site 452662002676 GTP binding site [chemical binding]; other site 452662002677 Signal peptide binding domain; Region: SRP_SPB; pfam02978 452662002678 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 452662002679 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 452662002680 RimM N-terminal domain; Region: RimM; pfam01782 452662002681 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 452662002682 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 452662002683 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 452662002684 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662002685 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 452662002686 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662002687 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 452662002688 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 452662002689 Coenzyme A binding pocket [chemical binding]; other site 452662002690 metabolite-proton symporter; Region: 2A0106; TIGR00883 452662002691 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 452662002692 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 452662002693 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 452662002694 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 452662002695 active site 452662002696 dimerization interface [polypeptide binding]; other site 452662002697 ribonuclease PH; Reviewed; Region: rph; PRK00173 452662002698 Ribonuclease PH; Region: RNase_PH_bact; cd11362 452662002699 hexamer interface [polypeptide binding]; other site 452662002700 active site 452662002701 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 452662002702 Helix-turn-helix domains; Region: HTH; cl00088 452662002703 HrcA protein C terminal domain; Region: HrcA; pfam01628 452662002704 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 452662002705 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 452662002706 dimer interface [polypeptide binding]; other site 452662002707 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 452662002708 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 452662002709 dimer interface [polypeptide binding]; other site 452662002710 putative CheW interface [polypeptide binding]; other site 452662002711 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 452662002712 proximal quinone binding site [chemical binding]; other site 452662002713 SdhD (CybS) interface [polypeptide binding]; other site 452662002714 proximal heme binding site [chemical binding]; other site 452662002715 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 452662002716 putative SdhC subunit interface [polypeptide binding]; other site 452662002717 putative proximal heme binding site [chemical binding]; other site 452662002718 putative Iron-sulfur protein interface [polypeptide binding]; other site 452662002719 putative proximal quinone binding site; other site 452662002720 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 452662002721 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662002722 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 452662002723 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 452662002724 GAF domain; Region: GAF; cl15785 452662002725 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 452662002726 metal binding site [ion binding]; metal-binding site 452662002727 active site 452662002728 I-site; other site 452662002729 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 452662002730 dimerization domain swap beta strand [polypeptide binding]; other site 452662002731 regulatory protein interface [polypeptide binding]; other site 452662002732 active site 452662002733 regulatory phosphorylation site [posttranslational modification]; other site 452662002734 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 452662002735 active pocket/dimerization site; other site 452662002736 active site 452662002737 phosphorylation site [posttranslational modification] 452662002738 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 452662002739 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 452662002740 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 452662002741 Hpr binding site; other site 452662002742 active site 452662002743 homohexamer subunit interaction site [polypeptide binding]; other site 452662002744 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 452662002745 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 452662002746 dimer interface [polypeptide binding]; other site 452662002747 phosphorylation site [posttranslational modification] 452662002748 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 452662002749 ATP binding site [chemical binding]; other site 452662002750 Mg2+ binding site [ion binding]; other site 452662002751 G-X-G motif; other site 452662002752 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 452662002753 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 452662002754 active site 452662002755 phosphorylation site [posttranslational modification] 452662002756 intermolecular recognition site; other site 452662002757 dimerization interface [polypeptide binding]; other site 452662002758 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 452662002759 DNA binding site [nucleotide binding] 452662002760 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 452662002761 active site 452662002762 substrate-binding site [chemical binding]; other site 452662002763 metal-binding site [ion binding] 452662002764 ATP binding site [chemical binding]; other site 452662002765 acetyl-CoA acetyltransferase; Validated; Region: PRK08257 452662002766 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 452662002767 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 452662002768 FAD binding pocket [chemical binding]; other site 452662002769 FAD binding motif [chemical binding]; other site 452662002770 phosphate binding motif [ion binding]; other site 452662002771 beta-alpha-beta structure motif; other site 452662002772 NAD binding pocket [chemical binding]; other site 452662002773 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]; Region: COG3947 452662002774 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 452662002775 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 452662002776 dimanganese center [ion binding]; other site 452662002777 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 452662002778 Domain of unknown function (DUF305); Region: DUF305; cl15795 452662002779 PAS domain S-box; Region: sensory_box; TIGR00229 452662002780 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 452662002781 putative active site [active] 452662002782 heme pocket [chemical binding]; other site 452662002783 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 452662002784 Histidine kinase; Region: HisKA_2; cl06527 452662002785 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 452662002786 Competence-damaged protein; Region: CinA; cl00666 452662002787 NAD synthetase; Reviewed; Region: nadE; PRK02628 452662002788 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 452662002789 multimer interface [polypeptide binding]; other site 452662002790 active site 452662002791 catalytic triad [active] 452662002792 protein interface 1 [polypeptide binding]; other site 452662002793 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 452662002794 homodimer interface [polypeptide binding]; other site 452662002795 NAD binding pocket [chemical binding]; other site 452662002796 ATP binding pocket [chemical binding]; other site 452662002797 Mg binding site [ion binding]; other site 452662002798 active-site loop [active] 452662002799 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 452662002800 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 452662002801 ligand binding site [chemical binding]; other site 452662002802 flexible hinge region; other site 452662002803 Helix-turn-helix domains; Region: HTH; cl00088 452662002804 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 452662002805 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 452662002806 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 452662002807 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 452662002808 Coenzyme F420-reducing hydrogenase, beta subunit [Energy production and conversion]; Region: FrhB; COG1035 452662002809 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 452662002810 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 452662002811 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 452662002812 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662002813 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 452662002814 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 452662002815 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH9; cd08269 452662002816 putative NAD(P) binding site [chemical binding]; other site 452662002817 catalytic Zn binding site [ion binding]; other site 452662002818 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 452662002819 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 452662002820 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 452662002821 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 452662002822 S-adenosylmethionine binding site [chemical binding]; other site 452662002823 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 452662002824 catalytic core [active] 452662002825 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662002826 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 452662002827 NAD(P) binding site [chemical binding]; other site 452662002828 active site 452662002829 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662002830 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 452662002831 NAD(P) binding site [chemical binding]; other site 452662002832 active site 452662002833 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 452662002834 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 452662002835 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 452662002836 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 452662002837 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 452662002838 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 452662002839 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 452662002840 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662002841 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 452662002842 NAD(P) binding site [chemical binding]; other site 452662002843 active site 452662002844 Response regulator receiver domain; Region: Response_reg; pfam00072 452662002845 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 452662002846 active site 452662002847 phosphorylation site [posttranslational modification] 452662002848 intermolecular recognition site; other site 452662002849 dimerization interface [polypeptide binding]; other site 452662002850 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 452662002851 Domain of unknown function (DUF305); Region: DUF305; cl15795 452662002852 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 452662002853 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 452662002854 ligand binding site [chemical binding]; other site 452662002855 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 452662002856 putative switch regulator; other site 452662002857 non-specific DNA interactions [nucleotide binding]; other site 452662002858 DNA binding site [nucleotide binding] 452662002859 sequence specific DNA binding site [nucleotide binding]; other site 452662002860 putative cAMP binding site [chemical binding]; other site 452662002861 hypothetical protein; Provisional; Region: PRK13559 452662002862 Histidine kinase; Region: HisKA_2; cl06527 452662002863 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 452662002864 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 452662002865 ligand binding site [chemical binding]; other site 452662002866 flexible hinge region; other site 452662002867 Helix-turn-helix domains; Region: HTH; cl00088 452662002868 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 452662002869 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 452662002870 active site 452662002871 phosphorylation site [posttranslational modification] 452662002872 intermolecular recognition site; other site 452662002873 dimerization interface [polypeptide binding]; other site 452662002874 Sensors of blue-light using FAD; Region: BLUF; cl04855 452662002875 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 452662002876 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 452662002877 active site 452662002878 phosphorylation site [posttranslational modification] 452662002879 intermolecular recognition site; other site 452662002880 dimerization interface [polypeptide binding]; other site 452662002881 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 452662002882 DNA binding residues [nucleotide binding] 452662002883 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 452662002884 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 452662002885 active site 452662002886 catalytic site [active] 452662002887 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 452662002888 Cytochrome c; Region: Cytochrom_C; cl11414 452662002889 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 452662002890 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_1; cd02864 452662002891 Subunit I/III interface [polypeptide binding]; other site 452662002892 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 452662002893 Subunit I/III interface [polypeptide binding]; other site 452662002894 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 452662002895 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 452662002896 D-pathway; other site 452662002897 Low-spin heme binding site [chemical binding]; other site 452662002898 Putative water exit pathway; other site 452662002899 Binuclear center (active site) [active] 452662002900 K-pathway; other site 452662002901 Putative proton exit pathway; other site 452662002902 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 452662002903 Cell division inhibitor SulA; Region: SulA; cl01880 452662002904 DNA Polymerase Y-family; Region: PolY_like; cd03468 452662002905 active site 452662002906 DNA binding site [nucleotide binding] 452662002907 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 452662002908 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 452662002909 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 452662002910 generic binding surface II; other site 452662002911 generic binding surface I; other site 452662002912 TadE-like protein; Region: TadE; cl10688 452662002913 TadE-like protein; Region: TadE; cl10688 452662002914 rod shape-determining protein MreB; Provisional; Region: PRK13927 452662002915 Cell division protein FtsA; Region: FtsA; cl11496 452662002916 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 452662002917 AMP binding site [chemical binding]; other site 452662002918 metal binding site [ion binding]; metal-binding site 452662002919 active site 452662002920 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; cl09826 452662002921 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 452662002922 bacteriophage N4 adsorption protein B; Provisional; Region: PRK14716 452662002923 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 452662002924 active site 452662002925 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 452662002926 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 452662002927 Low affinity iron permease; Region: Iron_permease; cl12096 452662002928 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 452662002929 ATP-grasp domain; Region: ATP-grasp_4; cl03087 452662002930 CoA-ligase; Region: Ligase_CoA; cl02894 452662002931 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 452662002932 Ligand binding site [chemical binding]; other site 452662002933 Electron transfer flavoprotein domain; Region: ETF; pfam01012 452662002934 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 452662002935 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 452662002936 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 452662002937 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 452662002938 DNA-binding site [nucleotide binding]; DNA binding site 452662002939 RNA-binding motif; other site 452662002940 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 452662002941 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 452662002942 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 452662002943 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662002944 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 452662002945 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 452662002946 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 452662002947 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 452662002948 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 452662002949 active site 452662002950 phosphorylation site [posttranslational modification] 452662002951 intermolecular recognition site; other site 452662002952 dimerization interface [polypeptide binding]; other site 452662002953 LytTr DNA-binding domain; Region: LytTR; cl04498 452662002954 Histidine kinase; Region: His_kinase; pfam06580 452662002955 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 452662002956 ATP binding site [chemical binding]; other site 452662002957 Mg2+ binding site [ion binding]; other site 452662002958 G-X-G motif; other site 452662002959 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 452662002960 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 452662002961 N-terminal plug; other site 452662002962 ligand-binding site [chemical binding]; other site 452662002963 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 452662002964 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662002965 NAD(P) binding site [chemical binding]; other site 452662002966 active site 452662002967 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 452662002968 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 452662002969 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 452662002970 iron-sulfur cluster [ion binding]; other site 452662002971 [2Fe-2S] cluster binding site [ion binding]; other site 452662002972 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 452662002973 hydrophobic ligand binding site; other site 452662002974 Activator of aromatic catabolism; Region: XylR_N; pfam06505 452662002975 Heme NO binding; Region: HNOB; cl15268 452662002976 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 452662002977 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 452662002978 Walker A motif; other site 452662002979 ATP binding site [chemical binding]; other site 452662002980 Walker B motif; other site 452662002981 arginine finger; other site 452662002982 Helix-turn-helix domains; Region: HTH; cl00088 452662002983 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 452662002984 Helix-turn-helix domains; Region: HTH; cl00088 452662002985 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 452662002986 dimerization interface [polypeptide binding]; other site 452662002987 substrate binding pocket [chemical binding]; other site 452662002988 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 452662002989 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 452662002990 NAD binding site [chemical binding]; other site 452662002991 catalytic residues [active] 452662002992 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 452662002993 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 452662002994 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 452662002995 active site 1 [active] 452662002996 dimer interface [polypeptide binding]; other site 452662002997 hexamer interface [polypeptide binding]; other site 452662002998 active site 2 [active] 452662002999 acetaldehyde dehydrogenase; Validated; Region: PRK08300 452662003000 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662003001 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 452662003002 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 452662003003 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 452662003004 active site 452662003005 catalytic residues [active] 452662003006 metal binding site [ion binding]; metal-binding site 452662003007 DmpG-like communication domain; Region: DmpG_comm; pfam07836 452662003008 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662003009 NAD(P) binding site [chemical binding]; other site 452662003010 active site 452662003011 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 452662003012 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 452662003013 Domain of unknown function (DUF336); Region: DUF336; cl01249 452662003014 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 452662003015 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 452662003016 active site 452662003017 metal binding site [ion binding]; metal-binding site 452662003018 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 452662003019 active site 452662003020 metal binding site [ion binding]; metal-binding site 452662003021 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 452662003022 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 452662003023 N-terminal plug; other site 452662003024 ligand-binding site [chemical binding]; other site 452662003025 Phenol hydroxylase subunit; Region: Phenol_hyd_sub; pfam06099 452662003026 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 452662003027 dinuclear metal binding motif [ion binding]; other site 452662003028 MmoB/DmpM family; Region: MmoB_DmpM; pfam02406 452662003029 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 452662003030 dinuclear metal binding motif [ion binding]; other site 452662003031 Phenol hydroxylase conserved region; Region: Phenol_monoox; pfam04663 452662003032 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 452662003033 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 452662003034 catalytic loop [active] 452662003035 iron binding site [ion binding]; other site 452662003036 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 452662003037 FAD binding pocket [chemical binding]; other site 452662003038 conserved FAD binding motif [chemical binding]; other site 452662003039 phosphate binding motif [ion binding]; other site 452662003040 beta-alpha-beta structure motif; other site 452662003041 NAD binding pocket [chemical binding]; other site 452662003042 Activator of aromatic catabolism; Region: XylR_N; pfam06505 452662003043 Heme NO binding; Region: HNOB; cl15268 452662003044 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 452662003045 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 452662003046 Walker A motif; other site 452662003047 ATP binding site [chemical binding]; other site 452662003048 Walker B motif; other site 452662003049 arginine finger; other site 452662003050 Helix-turn-helix domains; Region: HTH; cl00088 452662003051 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 452662003052 Sulfatase; Region: Sulfatase; cl10460 452662003053 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 452662003054 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 452662003055 N-terminal plug; other site 452662003056 ligand-binding site [chemical binding]; other site 452662003057 Transcriptional regulator [Transcription]; Region: LysR; COG0583 452662003058 Helix-turn-helix domains; Region: HTH; cl00088 452662003059 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 452662003060 dimerization interface [polypeptide binding]; other site 452662003061 Integrase core domain; Region: rve; cl01316 452662003062 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 452662003063 Helix-turn-helix domains; Region: HTH; cl00088 452662003064 Integrase core domain; Region: rve; cl01316 452662003065 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 452662003066 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; cl15754 452662003067 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 452662003068 PAS domain; Region: PAS_9; pfam13426 452662003069 putative active site [active] 452662003070 heme pocket [chemical binding]; other site 452662003071 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 452662003072 dimer interface [polypeptide binding]; other site 452662003073 putative CheW interface [polypeptide binding]; other site 452662003074 S-adenosylmethionine synthetase; Validated; Region: PRK05250 452662003075 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 452662003076 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 452662003077 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 452662003078 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 452662003079 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 452662003080 putative active site [active] 452662003081 catalytic triad [active] 452662003082 putative dimer interface [polypeptide binding]; other site 452662003083 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 452662003084 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 452662003085 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 452662003086 Coenzyme A binding pocket [chemical binding]; other site 452662003087 Uncharacterized conserved protein [Function unknown]; Region: COG5323 452662003088 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 452662003089 Phage-related protein [Function unknown]; Region: COG4695; cl01923 452662003090 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 452662003091 Phage capsid family; Region: Phage_capsid; pfam05065 452662003092 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 452662003093 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 452662003094 Phage major tail protein 2; Region: Phage_tail_2; cl11463 452662003095 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 452662003096 Conserved hypothetical phage protein (DUF2376); Region: DUF2376; cl09774 452662003097 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; cl02268 452662003098 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 452662003099 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 452662003100 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 452662003101 Putative phage tail protein; Region: Phage-tail_3; pfam13550 452662003102 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 452662003103 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 452662003104 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 452662003105 ligand binding site [chemical binding]; other site 452662003106 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 452662003107 E-class dimer interface [polypeptide binding]; other site 452662003108 P-class dimer interface [polypeptide binding]; other site 452662003109 active site 452662003110 Cu2+ binding site [ion binding]; other site 452662003111 Zn2+ binding site [ion binding]; other site 452662003112 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 452662003113 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 452662003114 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 452662003115 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 452662003116 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 452662003117 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 452662003118 putative C-terminal domain interface [polypeptide binding]; other site 452662003119 putative GSH binding site (G-site) [chemical binding]; other site 452662003120 putative dimer interface [polypeptide binding]; other site 452662003121 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 452662003122 dimer interface [polypeptide binding]; other site 452662003123 N-terminal domain interface [polypeptide binding]; other site 452662003124 putative substrate binding pocket (H-site) [chemical binding]; other site 452662003125 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 452662003126 Clp amino terminal domain; Region: Clp_N; pfam02861 452662003127 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 452662003128 Walker A motif; other site 452662003129 ATP binding site [chemical binding]; other site 452662003130 Walker B motif; other site 452662003131 arginine finger; other site 452662003132 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 452662003133 Walker A motif; other site 452662003134 ATP binding site [chemical binding]; other site 452662003135 Walker B motif; other site 452662003136 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 452662003137 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 452662003138 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 452662003139 NAD(P) binding site [chemical binding]; other site 452662003140 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 452662003141 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 452662003142 putative active site [active] 452662003143 putative metal binding site [ion binding]; other site 452662003144 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 452662003145 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 452662003146 Protein of unknown function (DUF1013); Region: DUF1013; cl11533 452662003147 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05605 452662003148 AMP-binding enzyme; Region: AMP-binding; cl15778 452662003149 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 452662003150 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 452662003151 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 452662003152 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 452662003153 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662003154 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 452662003155 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 452662003156 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662003157 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 452662003158 NlpC/P60 family; Region: NLPC_P60; cl11438 452662003159 Helix-turn-helix domains; Region: HTH; cl00088 452662003160 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 452662003161 interface (dimer of trimers) [polypeptide binding]; other site 452662003162 Substrate-binding/catalytic site; other site 452662003163 Zn-binding sites [ion binding]; other site 452662003164 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 452662003165 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 452662003166 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 452662003167 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 452662003168 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 452662003169 FeS/SAM binding site; other site 452662003170 Ion channel; Region: Ion_trans_2; cl11596 452662003171 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 452662003172 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662003173 Survival protein SurE; Region: SurE; cl00448 452662003174 seryl-tRNA synthetase; Provisional; Region: PRK05431 452662003175 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 452662003176 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 452662003177 dimer interface [polypeptide binding]; other site 452662003178 active site 452662003179 motif 1; other site 452662003180 motif 2; other site 452662003181 motif 3; other site 452662003182 Protein required for attachment to host cells; Region: Host_attach; cl02398 452662003183 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 452662003184 PilZ domain; Region: PilZ; cl01260 452662003185 Protein of unknown function (DUF465); Region: DUF465; cl01070 452662003186 Protein of unknown function (DUF465); Region: DUF465; cl01070 452662003187 Protein of unknown function (DUF1465); Region: DUF1465; cl11562 452662003188 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 452662003189 Surface antigen; Region: Bac_surface_Ag; cl03097 452662003190 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 452662003191 Family of unknown function (DUF490); Region: DUF490; pfam04357 452662003192 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 452662003193 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 452662003194 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 452662003195 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 452662003196 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 452662003197 active site 452662003198 dimer interface [polypeptide binding]; other site 452662003199 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 452662003200 active site 452662003201 catalytic residues [active] 452662003202 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 452662003203 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 452662003204 putative substrate translocation pore; other site 452662003205 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 452662003206 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 452662003207 short chain dehydrogenase; Provisional; Region: PRK12939 452662003208 classical (c) SDRs; Region: SDR_c; cd05233 452662003209 NAD(P) binding site [chemical binding]; other site 452662003210 active site 452662003211 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 452662003212 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 452662003213 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 452662003214 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 452662003215 putative DNA binding site [nucleotide binding]; other site 452662003216 putative homodimer interface [polypeptide binding]; other site 452662003217 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 452662003218 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 452662003219 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 452662003220 active site 452662003221 DNA binding site [nucleotide binding] 452662003222 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 452662003223 DNA binding site [nucleotide binding] 452662003224 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 452662003225 nucleotide binding site [chemical binding]; other site 452662003226 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl08302 452662003227 EF-hand domain pair; Region: EF_hand_5; pfam13499 452662003228 Ca2+ binding site [ion binding]; other site 452662003229 adenylosuccinate lyase; Provisional; Region: PRK07492 452662003230 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 452662003231 tetramer interface [polypeptide binding]; other site 452662003232 active site 452662003233 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 452662003234 Transcriptional regulators [Transcription]; Region: PurR; COG1609 452662003235 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 452662003236 DNA binding site [nucleotide binding] 452662003237 domain linker motif; other site 452662003238 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 452662003239 putative dimerization interface [polypeptide binding]; other site 452662003240 putative ligand binding site [chemical binding]; other site 452662003241 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 452662003242 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 452662003243 putative DNA binding site [nucleotide binding]; other site 452662003244 putative Zn2+ binding site [ion binding]; other site 452662003245 Helix-turn-helix domains; Region: HTH; cl00088 452662003246 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 452662003247 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 452662003248 dimerization interface [polypeptide binding]; other site 452662003249 active site 452662003250 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 452662003251 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 452662003252 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 452662003253 tetramer interface [polypeptide binding]; other site 452662003254 TPP-binding site [chemical binding]; other site 452662003255 heterodimer interface [polypeptide binding]; other site 452662003256 phosphorylation loop region [posttranslational modification] 452662003257 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 452662003258 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 452662003259 alpha subunit interface [polypeptide binding]; other site 452662003260 TPP binding site [chemical binding]; other site 452662003261 heterodimer interface [polypeptide binding]; other site 452662003262 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 452662003263 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 452662003264 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 452662003265 E3 interaction surface; other site 452662003266 lipoyl attachment site [posttranslational modification]; other site 452662003267 e3 binding domain; Region: E3_binding; pfam02817 452662003268 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 452662003269 Fibronectin type III-like domain; Region: Fn3-like; cl15273 452662003270 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 452662003271 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 452662003272 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 452662003273 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 452662003274 Cell division protein ZapA; Region: ZapA; cl01146 452662003275 transketolase; Reviewed; Region: PRK05899 452662003276 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 452662003277 TPP-binding site [chemical binding]; other site 452662003278 dimer interface [polypeptide binding]; other site 452662003279 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 452662003280 PYR/PP interface [polypeptide binding]; other site 452662003281 dimer interface [polypeptide binding]; other site 452662003282 TPP binding site [chemical binding]; other site 452662003283 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 452662003284 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662003285 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 452662003286 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 452662003287 Phosphoglycerate kinase; Region: PGK; pfam00162 452662003288 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 452662003289 substrate binding site [chemical binding]; other site 452662003290 hinge regions; other site 452662003291 ADP binding site [chemical binding]; other site 452662003292 catalytic site [active] 452662003293 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 452662003294 catalytic residue [active] 452662003295 Protein of unknown function DUF72; Region: DUF72; cl00777 452662003296 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 452662003297 thiamine phosphate binding site [chemical binding]; other site 452662003298 active site 452662003299 pyrophosphate binding site [ion binding]; other site 452662003300 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 452662003301 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 452662003302 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 452662003303 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 452662003304 Peptidase family M23; Region: Peptidase_M23; pfam01551 452662003305 elongation factor P; Validated; Region: PRK00529 452662003306 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 452662003307 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 452662003308 RNA binding site [nucleotide binding]; other site 452662003309 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 452662003310 RNA binding site [nucleotide binding]; other site 452662003311 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 452662003312 active site 452662003313 dimerization interface [polypeptide binding]; other site 452662003314 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 452662003315 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 452662003316 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 452662003317 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 452662003318 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 452662003319 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 452662003320 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 452662003321 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 452662003322 putative dimer interface [polypeptide binding]; other site 452662003323 [2Fe-2S] cluster binding site [ion binding]; other site 452662003324 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 452662003325 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 452662003326 SLBB domain; Region: SLBB; pfam10531 452662003327 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 452662003328 NADH dehydrogenase subunit G; Validated; Region: PRK09130 452662003329 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 452662003330 catalytic loop [active] 452662003331 iron binding site [ion binding]; other site 452662003332 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 452662003333 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 452662003334 molybdopterin cofactor binding site; other site 452662003335 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 452662003336 NADH dehydrogenase; Region: NADHdh; cl00469 452662003337 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 452662003338 4Fe-4S binding domain; Region: Fer4; cl02805 452662003339 4Fe-4S binding domain; Region: Fer4; cl02805 452662003340 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 452662003341 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 452662003342 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 452662003343 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 452662003344 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 452662003345 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 452662003346 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 452662003347 NADH dehydrogenase subunit 5 C-terminus; Region: NADH5_C; pfam06455 452662003348 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 452662003349 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 452662003350 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 452662003351 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 452662003352 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 452662003353 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 452662003354 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 452662003355 Type III pantothenate kinase; Region: Pan_kinase; cl09130 452662003356 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 452662003357 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 452662003358 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 452662003359 Protein of unknown function (DUF1467); Region: DUF1467; cl11569 452662003360 Predicted acetyltransferase [General function prediction only]; Region: COG3393 452662003361 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 452662003362 Coenzyme A binding pocket [chemical binding]; other site 452662003363 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 452662003364 metal binding site [ion binding]; metal-binding site 452662003365 active site 452662003366 I-site; other site 452662003367 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 452662003368 enoyl-CoA hydratase; Validated; Region: PRK08788 452662003369 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 452662003370 substrate binding site [chemical binding]; other site 452662003371 oxyanion hole (OAH) forming residues; other site 452662003372 trimer interface [polypeptide binding]; other site 452662003373 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 452662003374 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 452662003375 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 452662003376 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 452662003377 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 452662003378 putative active site [active] 452662003379 putative substrate binding site [chemical binding]; other site 452662003380 putative cosubstrate binding site; other site 452662003381 catalytic site [active] 452662003382 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 452662003383 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 452662003384 Sel1 repeat; Region: Sel1; cl02723 452662003385 Sporulation related domain; Region: SPOR; cl10051 452662003386 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 452662003387 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 452662003388 P-loop; other site 452662003389 Magnesium ion binding site [ion binding]; other site 452662003390 Sporulation related domain; Region: SPOR; cl10051 452662003391 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 452662003392 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662003393 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 452662003394 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 452662003395 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662003396 hypothetical protein; Provisional; Region: PRK06126 452662003397 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662003398 benzoate transport; Region: 2A0115; TIGR00895 452662003399 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 452662003400 putative substrate translocation pore; other site 452662003401 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 452662003402 Helix-turn-helix domains; Region: HTH; cl00088 452662003403 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 452662003404 dimerization interface [polypeptide binding]; other site 452662003405 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 452662003406 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 452662003407 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 452662003408 N-terminal plug; other site 452662003409 ligand-binding site [chemical binding]; other site 452662003410 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 452662003411 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 452662003412 phosphate binding site [ion binding]; other site 452662003413 D-lactate dehydrogenase; Provisional; Region: PRK11183 452662003414 FAD binding domain; Region: FAD_binding_4; pfam01565 452662003415 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 452662003416 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 452662003417 classical (c) SDRs; Region: SDR_c; cd05233 452662003418 NAD(P) binding site [chemical binding]; other site 452662003419 active site 452662003420 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 452662003421 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 452662003422 Helix-turn-helix domains; Region: HTH; cl00088 452662003423 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 452662003424 dimerization interface [polypeptide binding]; other site 452662003425 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 452662003426 The single-domain 2,3-dihydroxybiphenyl 1,2-dioxygenases (BphC, EC 1.13.11.39) from Rhodococcus globerulus P6, BphC2-RGP6 and BphC3-RGP6, and similar proteins; Region: BphC2-C3-RGP6_C_like; cd08348 452662003427 putative active site [active] 452662003428 putative metal binding site [ion binding]; other site 452662003429 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662003430 hypothetical protein; Provisional; Region: PRK06126 452662003431 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662003432 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 452662003433 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662003434 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 452662003435 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 452662003436 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 452662003437 N-terminal plug; other site 452662003438 ligand-binding site [chemical binding]; other site 452662003439 acetyl-CoA acetyltransferase; Provisional; Region: PRK07516 452662003440 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 452662003441 active site 452662003442 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 452662003443 Helix-turn-helix domains; Region: HTH; cl00088 452662003444 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 452662003445 substrate binding pocket [chemical binding]; other site 452662003446 dimerization interface [polypeptide binding]; other site 452662003447 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 452662003448 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 452662003449 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662003450 NAD(P) binding site [chemical binding]; other site 452662003451 active site 452662003452 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 452662003453 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 452662003454 putative NAD(P) binding site [chemical binding]; other site 452662003455 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 452662003456 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 452662003457 Amidohydrolase; Region: Amidohydro_4; pfam13147 452662003458 active site 452662003459 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 452662003460 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 452662003461 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662003462 The single-domain 2,3-dihydroxybiphenyl 1,2-dioxygenases (BphC, EC 1.13.11.39) from Rhodococcus globerulus P6, BphC2-RGP6 and BphC3-RGP6, and similar proteins; Region: BphC2-C3-RGP6_C_like; cd08348 452662003463 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 452662003464 putative active site [active] 452662003465 putative metal binding site [ion binding]; other site 452662003466 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 452662003467 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 452662003468 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 452662003469 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 452662003470 dimer interface [polypeptide binding]; other site 452662003471 active site 452662003472 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 452662003473 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662003474 NAD(P) binding site [chemical binding]; other site 452662003475 active site 452662003476 Transposase domain (DUF772); Region: DUF772; cl15789 452662003477 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 452662003478 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 452662003479 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 452662003480 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 452662003481 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 452662003482 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 452662003483 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 452662003484 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662003485 NAD(P) binding site [chemical binding]; other site 452662003486 active site 452662003487 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 452662003488 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 452662003489 N-terminal plug; other site 452662003490 ligand-binding site [chemical binding]; other site 452662003491 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 452662003492 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 452662003493 NAD(P) binding site [chemical binding]; other site 452662003494 catalytic residues [active] 452662003495 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 452662003496 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 452662003497 catalytic Zn binding site [ion binding]; other site 452662003498 NAD binding site [chemical binding]; other site 452662003499 structural Zn binding site [ion binding]; other site 452662003500 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 452662003501 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 452662003502 putative NAD(P) binding site [chemical binding]; other site 452662003503 enoyl-CoA hydratase; Provisional; Region: PRK06494 452662003504 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 452662003505 substrate binding site [chemical binding]; other site 452662003506 oxyanion hole (OAH) forming residues; other site 452662003507 trimer interface [polypeptide binding]; other site 452662003508 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 452662003509 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 452662003510 FMN binding site [chemical binding]; other site 452662003511 substrate binding site [chemical binding]; other site 452662003512 putative catalytic residue [active] 452662003513 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 452662003514 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 452662003515 active site 452662003516 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 452662003517 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 452662003518 active site 452662003519 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 452662003520 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 452662003521 putative active site [active] 452662003522 putative substrate binding site [chemical binding]; other site 452662003523 ATP binding site [chemical binding]; other site 452662003524 Transposase domain (DUF772); Region: DUF772; cl15789 452662003525 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 452662003526 putative substrate translocation pore; other site 452662003527 Major Facilitator Superfamily; Region: MFS_1; pfam07690 452662003528 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662003529 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 452662003530 NAD(P) binding site [chemical binding]; other site 452662003531 active site 452662003532 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 452662003533 N-terminal plug; other site 452662003534 ligand-binding site [chemical binding]; other site 452662003535 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 452662003536 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 452662003537 FMN binding site [chemical binding]; other site 452662003538 substrate binding site [chemical binding]; other site 452662003539 putative catalytic residue [active] 452662003540 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 452662003541 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662003542 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 452662003543 Helix-turn-helix domains; Region: HTH; cl00088 452662003544 acyl-CoA synthetase; Validated; Region: PRK06188 452662003545 AMP-binding enzyme; Region: AMP-binding; cl15778 452662003546 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 452662003547 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 452662003548 classical (c) SDRs; Region: SDR_c; cd05233 452662003549 NAD(P) binding site [chemical binding]; other site 452662003550 active site 452662003551 beta-ketothiolase; Provisional; Region: PRK09051 452662003552 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 452662003553 dimer interface [polypeptide binding]; other site 452662003554 active site 452662003555 Helix-turn-helix domains; Region: HTH; cl00088 452662003556 putative transposase OrfB; Reviewed; Region: PHA02517 452662003557 HTH-like domain; Region: HTH_21; pfam13276 452662003558 Integrase core domain; Region: rve; cl01316 452662003559 Integrase core domain; Region: rve_3; cl15866 452662003560 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 452662003561 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 452662003562 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 452662003563 FeS/SAM binding site; other site 452662003564 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 452662003565 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 452662003566 metal binding site [ion binding]; metal-binding site 452662003567 active site 452662003568 I-site; other site 452662003569 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 452662003570 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 452662003571 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 452662003572 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 452662003573 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 452662003574 ATP binding site [chemical binding]; other site 452662003575 putative Mg++ binding site [ion binding]; other site 452662003576 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 452662003577 nucleotide binding region [chemical binding]; other site 452662003578 ATP-binding site [chemical binding]; other site 452662003579 TRCF domain; Region: TRCF; cl04088 452662003580 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 452662003581 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 452662003582 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 452662003583 ssDNA binding site; other site 452662003584 generic binding surface II; other site 452662003585 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 452662003586 ATP binding site [chemical binding]; other site 452662003587 putative Mg++ binding site [ion binding]; other site 452662003588 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 452662003589 nucleotide binding region [chemical binding]; other site 452662003590 ATP-binding site [chemical binding]; other site 452662003591 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 452662003592 Mechanosensitive ion channel; Region: MS_channel; pfam00924 452662003593 PilZ domain; Region: PilZ; cl01260 452662003594 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 452662003595 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 452662003596 active site 452662003597 HIGH motif; other site 452662003598 dimer interface [polypeptide binding]; other site 452662003599 KMSKS motif; other site 452662003600 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 452662003601 RNA binding surface [nucleotide binding]; other site 452662003602 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 452662003603 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 452662003604 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 452662003605 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 452662003606 dimer interface [polypeptide binding]; other site 452662003607 putative CheW interface [polypeptide binding]; other site 452662003608 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 452662003609 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 452662003610 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 452662003611 Walker A motif; other site 452662003612 ATP binding site [chemical binding]; other site 452662003613 Walker B motif; other site 452662003614 arginine finger; other site 452662003615 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 452662003616 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 452662003617 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 452662003618 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 452662003619 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 452662003620 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 452662003621 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 452662003622 DNA binding residues [nucleotide binding] 452662003623 CHC2 zinc finger; Region: zf-CHC2; cl15369 452662003624 DNA primase, catalytic core; Region: dnaG; TIGR01391 452662003625 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 452662003626 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 452662003627 active site 452662003628 metal binding site [ion binding]; metal-binding site 452662003629 interdomain interaction site; other site 452662003630 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 452662003631 GIY-YIG motif/motif A; other site 452662003632 putative active site [active] 452662003633 putative metal binding site [ion binding]; other site 452662003634 GatB domain; Region: GatB_Yqey; cl11497 452662003635 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 452662003636 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 452662003637 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 452662003638 catalytic site [active] 452662003639 subunit interface [polypeptide binding]; other site 452662003640 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 452662003641 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 452662003642 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 452662003643 ATP-grasp domain; Region: ATP-grasp_4; cl03087 452662003644 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 452662003645 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 452662003646 ATP-grasp domain; Region: ATP-grasp_4; cl03087 452662003647 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 452662003648 IMP binding site; other site 452662003649 dimer interface [polypeptide binding]; other site 452662003650 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 452662003651 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 452662003652 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 452662003653 Rhomboid family; Region: Rhomboid; cl11446 452662003654 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 452662003655 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 452662003656 enolase; Provisional; Region: eno; PRK00077 452662003657 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 452662003658 dimer interface [polypeptide binding]; other site 452662003659 metal binding site [ion binding]; metal-binding site 452662003660 substrate binding pocket [chemical binding]; other site 452662003661 Septum formation initiator; Region: DivIC; cl11433 452662003662 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 452662003663 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 452662003664 tetramer interface [polypeptide binding]; other site 452662003665 TPP-binding site [chemical binding]; other site 452662003666 heterodimer interface [polypeptide binding]; other site 452662003667 phosphorylation loop region [posttranslational modification] 452662003668 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 452662003669 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 452662003670 E3 interaction surface; other site 452662003671 lipoyl attachment site [posttranslational modification]; other site 452662003672 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 452662003673 alpha subunit interface [polypeptide binding]; other site 452662003674 TPP binding site [chemical binding]; other site 452662003675 heterodimer interface [polypeptide binding]; other site 452662003676 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 452662003677 TadE-like protein; Region: TadE; cl10688 452662003678 TadE-like protein; Region: TadE; cl10688 452662003679 TadE-like protein; Region: TadE; cl10688 452662003680 transaldolase/EF-hand domain-containing protein; Provisional; Region: PRK12309 452662003681 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl08302 452662003682 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662003683 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 452662003684 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 452662003685 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 452662003686 hypothetical protein; Provisional; Region: PRK09133 452662003687 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 452662003688 putative metal binding site [ion binding]; other site 452662003689 2-isopropylmalate synthase; Validated; Region: PRK03739 452662003690 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 452662003691 active site 452662003692 catalytic residues [active] 452662003693 metal binding site [ion binding]; metal-binding site 452662003694 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 452662003695 YceI-like domain; Region: YceI; cl01001 452662003696 ketol-acid reductoisomerase; Provisional; Region: PRK05479 452662003697 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662003698 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 452662003699 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 452662003700 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 452662003701 putative valine binding site [chemical binding]; other site 452662003702 dimer interface [polypeptide binding]; other site 452662003703 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 452662003704 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 452662003705 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 452662003706 PYR/PP interface [polypeptide binding]; other site 452662003707 dimer interface [polypeptide binding]; other site 452662003708 TPP binding site [chemical binding]; other site 452662003709 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 452662003710 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 452662003711 TPP-binding site [chemical binding]; other site 452662003712 dimer interface [polypeptide binding]; other site 452662003713 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662003714 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 452662003715 phosphoserine phosphatase SerB; Region: serB; TIGR00338 452662003716 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 452662003717 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 452662003718 motif II; other site 452662003719 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 452662003720 putative active site [active] 452662003721 catalytic triad [active] 452662003722 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 452662003723 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 452662003724 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 452662003725 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 452662003726 ATP binding site [chemical binding]; other site 452662003727 active site 452662003728 substrate binding site [chemical binding]; other site 452662003729 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 452662003730 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 452662003731 active site 452662003732 homotetramer interface [polypeptide binding]; other site 452662003733 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 452662003734 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 452662003735 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 452662003736 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 452662003737 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 452662003738 Helix-turn-helix domains; Region: HTH; cl00088 452662003739 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 452662003740 dimerization interface [polypeptide binding]; other site 452662003741 substrate binding pocket [chemical binding]; other site 452662003742 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 452662003743 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 452662003744 CAP-like domain; other site 452662003745 active site 452662003746 primary dimer interface [polypeptide binding]; other site 452662003747 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 452662003748 metal binding site [ion binding]; metal-binding site 452662003749 active site 452662003750 I-site; other site 452662003751 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 452662003752 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 452662003753 active site 452662003754 NTP binding site [chemical binding]; other site 452662003755 metal binding triad [ion binding]; metal-binding site 452662003756 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 452662003757 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 452662003758 putative active site [active] 452662003759 putative CoA binding site [chemical binding]; other site 452662003760 nudix motif; other site 452662003761 metal binding site [ion binding]; metal-binding site 452662003762 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 452662003763 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 452662003764 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 452662003765 active site 452662003766 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 452662003767 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 452662003768 EVE domain; Region: EVE; cl00728 452662003769 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 452662003770 recombination factor protein RarA; Reviewed; Region: PRK13342 452662003771 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 452662003772 Walker A motif; other site 452662003773 ATP binding site [chemical binding]; other site 452662003774 Walker B motif; other site 452662003775 arginine finger; other site 452662003776 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 452662003777 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 452662003778 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 452662003779 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 452662003780 MOSC domain; Region: MOSC; pfam03473 452662003781 3-alpha domain; Region: 3-alpha; pfam03475 452662003782 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 452662003783 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 452662003784 AMP-binding enzyme; Region: AMP-binding; cl15778 452662003785 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 452662003786 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 452662003787 dimer interface [polypeptide binding]; other site 452662003788 active site 452662003789 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 452662003790 catalytic residues [active] 452662003791 substrate binding site [chemical binding]; other site 452662003792 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 452662003793 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 452662003794 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 452662003795 Chain length determinant protein; Region: Wzz; cl15801 452662003796 exopolysaccharide/PEPCTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 452662003797 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662003798 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 452662003799 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662003800 Walker A motif; other site 452662003801 ATP binding site [chemical binding]; other site 452662003802 Walker B motif; other site 452662003803 arginine finger; other site 452662003804 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 452662003805 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 452662003806 putative active site [active] 452662003807 putative catalytic site [active] 452662003808 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 452662003809 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 452662003810 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 452662003811 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 452662003812 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 452662003813 Protein of unknown function (DUF3485); Region: DUF3485; cl11827 452662003814 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 452662003815 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 452662003816 active site 452662003817 dimer interface [polypeptide binding]; other site 452662003818 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 452662003819 Ligand Binding Site [chemical binding]; other site 452662003820 Molecular Tunnel; other site 452662003821 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 452662003822 Bacterial sugar transferase; Region: Bac_transf; cl00939 452662003823 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 452662003824 DXD motif; other site 452662003825 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662003826 Glycosyl transferase 4-like domain; Region: Glyco_trans_4_4; cl15759 452662003827 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 452662003828 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662003829 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 452662003830 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 452662003831 Amidohydrolase family; Region: Amidohydro_3; pfam07969 452662003832 active site 452662003833 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 452662003834 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662003835 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 452662003836 NAD(P) binding pocket [chemical binding]; other site 452662003837 threonine dehydratase; Provisional; Region: PRK07334 452662003838 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 452662003839 tetramer interface [polypeptide binding]; other site 452662003840 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452662003841 catalytic residue [active] 452662003842 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 452662003843 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 452662003844 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 452662003845 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 452662003846 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 452662003847 PAS fold; Region: PAS_3; pfam08447 452662003848 putative active site [active] 452662003849 heme pocket [chemical binding]; other site 452662003850 PAS domain S-box; Region: sensory_box; TIGR00229 452662003851 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 452662003852 putative active site [active] 452662003853 heme pocket [chemical binding]; other site 452662003854 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 452662003855 metal binding site [ion binding]; metal-binding site 452662003856 active site 452662003857 I-site; other site 452662003858 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 452662003859 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 452662003860 GAF domain; Region: GAF; cl15785 452662003861 RF-1 domain; Region: RF-1; cl02875 452662003862 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 452662003863 active site 452662003864 OpgC protein; Region: OpgC_C; cl00792 452662003865 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 452662003866 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 452662003867 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 452662003868 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 452662003869 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 452662003870 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 452662003871 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 452662003872 dihydroorotase; Validated; Region: PRK09060 452662003873 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 452662003874 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 452662003875 active site 452662003876 Predicted permeases [General function prediction only]; Region: RarD; COG2962 452662003877 CrcB-like protein; Region: CRCB; cl09114 452662003878 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 452662003879 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 452662003880 active site 452662003881 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 452662003882 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 452662003883 motif II; other site 452662003884 ATP12 chaperone protein; Region: ATP12; cl02228 452662003885 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 452662003886 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 452662003887 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 452662003888 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 452662003889 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 452662003890 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 452662003891 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 452662003892 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 452662003893 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 452662003894 substrate binding site [chemical binding]; other site 452662003895 glutamase interaction surface [polypeptide binding]; other site 452662003896 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 452662003897 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 452662003898 catalytic residues [active] 452662003899 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 452662003900 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 452662003901 putative active site [active] 452662003902 oxyanion strand; other site 452662003903 catalytic triad [active] 452662003904 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 452662003905 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 452662003906 putative active site pocket [active] 452662003907 4-fold oligomerization interface [polypeptide binding]; other site 452662003908 metal binding residues [ion binding]; metal-binding site 452662003909 3-fold/trimer interface [polypeptide binding]; other site 452662003910 Stringent starvation protein B; Region: SspB; cl01120 452662003911 fumarate hydratase; Reviewed; Region: fumC; PRK00485 452662003912 Class II fumarases; Region: Fumarase_classII; cd01362 452662003913 active site 452662003914 tetramer interface [polypeptide binding]; other site 452662003915 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 452662003916 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 452662003917 catalytic site [active] 452662003918 G-X2-G-X-G-K; other site 452662003919 Uncharacterized conserved protein [Function unknown]; Region: COG1565 452662003920 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 452662003921 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 452662003922 Transposase domain (DUF772); Region: DUF772; cl15789 452662003923 Transposase domain (DUF772); Region: DUF772; cl15789 452662003924 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 452662003925 Cupin domain; Region: Cupin_2; cl09118 452662003926 LysR family transcriptional regulator; Provisional; Region: PRK14997 452662003927 Helix-turn-helix domains; Region: HTH; cl00088 452662003928 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 452662003929 putative effector binding pocket; other site 452662003930 dimerization interface [polypeptide binding]; other site 452662003931 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 452662003932 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 452662003933 active site 452662003934 phosphorylation site [posttranslational modification] 452662003935 intermolecular recognition site; other site 452662003936 dimerization interface [polypeptide binding]; other site 452662003937 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 452662003938 DNA binding site [nucleotide binding] 452662003939 Peptidase S8 family domain, uncharacterized subfamily 4; Region: Peptidases_S8_4; cd05561 452662003940 active site 452662003941 catalytic triad [active] 452662003942 RNA polymerase sigma factor; Provisional; Region: PRK12547 452662003943 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 452662003944 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 452662003945 DNA binding residues [nucleotide binding] 452662003946 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 452662003947 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 452662003948 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 452662003949 N-terminal plug; other site 452662003950 ligand-binding site [chemical binding]; other site 452662003951 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 452662003952 active site 452662003953 metal binding site [ion binding]; metal-binding site 452662003954 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 452662003955 trimer interface [polypeptide binding]; other site 452662003956 active site 452662003957 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 452662003958 active site 452662003959 catalytic motif [active] 452662003960 Zn binding site [ion binding]; other site 452662003961 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cd00599 452662003962 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 452662003963 active site 452662003964 Uncharacterized protein family (UPF0262); Region: UPF0262; cl11489 452662003965 replicative DNA helicase; Provisional; Region: PRK09165 452662003966 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 452662003967 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 452662003968 Walker A motif; other site 452662003969 ATP binding site [chemical binding]; other site 452662003970 Walker B motif; other site 452662003971 DNA binding loops [nucleotide binding] 452662003972 MAPEG family; Region: MAPEG; cl09190 452662003973 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 452662003974 Active Sites [active] 452662003975 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 452662003976 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 452662003977 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 452662003978 Animal heme peroxidases and related proteins; Region: An_peroxidase_like; cl14561 452662003979 substrate binding site [chemical binding]; other site 452662003980 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 452662003981 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 452662003982 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 452662003983 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 452662003984 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 452662003985 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 452662003986 NAD(P) binding site [chemical binding]; other site 452662003987 catalytic residues [active] 452662003988 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 452662003989 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 452662003990 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 452662003991 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 452662003992 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 452662003993 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 452662003994 FMN binding site [chemical binding]; other site 452662003995 substrate binding site [chemical binding]; other site 452662003996 putative catalytic residue [active] 452662003997 Uncharacterized protein conserved in bacteria (DUF2093); Region: DUF2093; cl11535 452662003998 Cytochrome c; Region: Cytochrom_C; cl11414 452662003999 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 452662004000 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 452662004001 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 452662004002 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 452662004003 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 452662004004 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 452662004005 Citrate transporter; Region: CitMHS; pfam03600 452662004006 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 452662004007 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 452662004008 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 452662004009 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 452662004010 FtsX-like permease family; Region: FtsX; cl15850 452662004011 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 452662004012 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 452662004013 Walker A/P-loop; other site 452662004014 ATP binding site [chemical binding]; other site 452662004015 Q-loop/lid; other site 452662004016 ABC transporter signature motif; other site 452662004017 Walker B; other site 452662004018 D-loop; other site 452662004019 H-loop/switch region; other site 452662004020 macrolide transporter subunit MacA; Provisional; Region: PRK11578 452662004021 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662004022 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662004023 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 452662004024 Acyl transferase domain; Region: Acyl_transf_1; cl08282 452662004025 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 452662004026 enoyl-CoA hydratase; Provisional; Region: PRK09245 452662004027 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 452662004028 substrate binding site [chemical binding]; other site 452662004029 oxyanion hole (OAH) forming residues; other site 452662004030 trimer interface [polypeptide binding]; other site 452662004031 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 452662004032 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662004033 NAD(P) binding site [chemical binding]; other site 452662004034 active site 452662004035 Phosphopantetheine attachment site; Region: PP-binding; cl09936 452662004036 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 452662004037 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 452662004038 dimer interface [polypeptide binding]; other site 452662004039 active site 452662004040 YceG-like family; Region: YceG; pfam02618 452662004041 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 452662004042 dimerization interface [polypeptide binding]; other site 452662004043 anthranilate synthase component I; Provisional; Region: PRK13573 452662004044 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 452662004045 chorismate binding enzyme; Region: Chorismate_bind; cl10555 452662004046 SurA N-terminal domain; Region: SurA_N_3; cl07813 452662004047 periplasmic folding chaperone; Provisional; Region: PRK10788 452662004048 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 452662004049 substrate binding site [chemical binding]; other site 452662004050 dimer interface [polypeptide binding]; other site 452662004051 catalytic triad [active] 452662004052 Preprotein translocase SecG subunit; Region: SecG; cl09123 452662004053 CTP synthetase; Validated; Region: pyrG; PRK05380 452662004054 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 452662004055 Catalytic site [active] 452662004056 active site 452662004057 UTP binding site [chemical binding]; other site 452662004058 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 452662004059 active site 452662004060 putative oxyanion hole; other site 452662004061 catalytic triad [active] 452662004062 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 452662004063 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 452662004064 hypothetical protein; Provisional; Region: PRK14636 452662004065 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 452662004066 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 452662004067 Sm1 motif; other site 452662004068 D1 - D2 interaction site; other site 452662004069 D3 - B interaction site; other site 452662004070 Hfq - Hfq interaction site; other site 452662004071 RNA binding pocket [nucleotide binding]; other site 452662004072 Sm2 motif; other site 452662004073 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 452662004074 NusA N-terminal domain; Region: NusA_N; pfam08529 452662004075 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 452662004076 RNA binding site [nucleotide binding]; other site 452662004077 homodimer interface [polypeptide binding]; other site 452662004078 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 452662004079 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 452662004080 G-X-X-G motif; other site 452662004081 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 452662004082 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 452662004083 active site 1 [active] 452662004084 dimer interface [polypeptide binding]; other site 452662004085 hexamer interface [polypeptide binding]; other site 452662004086 active site 2 [active] 452662004087 hypothetical protein; Provisional; Region: PRK09190 452662004088 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 452662004089 putative RNA binding cleft [nucleotide binding]; other site 452662004090 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 452662004091 translation initiation factor IF-2; Region: IF-2; TIGR00487 452662004092 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 452662004093 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 452662004094 G1 box; other site 452662004095 putative GEF interaction site [polypeptide binding]; other site 452662004096 GTP/Mg2+ binding site [chemical binding]; other site 452662004097 Switch I region; other site 452662004098 G2 box; other site 452662004099 G3 box; other site 452662004100 Switch II region; other site 452662004101 G4 box; other site 452662004102 G5 box; other site 452662004103 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 452662004104 Translation-initiation factor 2; Region: IF-2; pfam11987 452662004105 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 452662004106 Ribosome-binding factor A; Region: RBFA; cl00542 452662004107 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 452662004108 thymidine kinase; Provisional; Region: PRK04296 452662004109 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 452662004110 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 452662004111 RNA binding site [nucleotide binding]; other site 452662004112 active site 452662004113 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 452662004114 16S/18S rRNA binding site [nucleotide binding]; other site 452662004115 S13e-L30e interaction site [polypeptide binding]; other site 452662004116 25S rRNA binding site [nucleotide binding]; other site 452662004117 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 452662004118 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 452662004119 RNase E interface [polypeptide binding]; other site 452662004120 trimer interface [polypeptide binding]; other site 452662004121 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 452662004122 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 452662004123 RNase E interface [polypeptide binding]; other site 452662004124 trimer interface [polypeptide binding]; other site 452662004125 active site 452662004126 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 452662004127 putative nucleic acid binding region [nucleotide binding]; other site 452662004128 G-X-X-G motif; other site 452662004129 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 452662004130 RNA binding site [nucleotide binding]; other site 452662004131 domain interface; other site 452662004132 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 452662004133 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 452662004134 Histidine kinase; Region: HisKA_2; cl06527 452662004135 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 452662004136 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 452662004137 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 452662004138 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 452662004139 Walker A/P-loop; other site 452662004140 ATP binding site [chemical binding]; other site 452662004141 Q-loop/lid; other site 452662004142 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 452662004143 ABC transporter signature motif; other site 452662004144 Walker B; other site 452662004145 D-loop; other site 452662004146 H-loop/switch region; other site 452662004147 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 452662004148 amphipathic channel; other site 452662004149 Asn-Pro-Ala signature motifs; other site 452662004150 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 452662004151 ArsC family; Region: ArsC; pfam03960 452662004152 catalytic residues [active] 452662004153 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 452662004154 dimerization interface [polypeptide binding]; other site 452662004155 putative DNA binding site [nucleotide binding]; other site 452662004156 putative Zn2+ binding site [ion binding]; other site 452662004157 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 452662004158 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 452662004159 nucleotide binding pocket [chemical binding]; other site 452662004160 K-X-D-G motif; other site 452662004161 catalytic site [active] 452662004162 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 452662004163 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 452662004164 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 452662004165 Dimer interface [polypeptide binding]; other site 452662004166 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 452662004167 Helix-turn-helix domains; Region: HTH; cl00088 452662004168 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 452662004169 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 452662004170 dimer interface [polypeptide binding]; other site 452662004171 phosphorylation site [posttranslational modification] 452662004172 Putative catalytic domain of lipopolysaccharide biosynthesis protein WalW and its bacterial homologs; Region: CE4_WalW; cd10935 452662004173 putative active site [active] 452662004174 putative catalytic site [active] 452662004175 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 452662004176 NMT1-like family; Region: NMT1_2; cl15260 452662004177 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 452662004178 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 452662004179 dimer interface [polypeptide binding]; other site 452662004180 conserved gate region; other site 452662004181 putative PBP binding loops; other site 452662004182 ABC-ATPase subunit interface; other site 452662004183 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 452662004184 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 452662004185 Walker A/P-loop; other site 452662004186 ATP binding site [chemical binding]; other site 452662004187 Q-loop/lid; other site 452662004188 ABC transporter signature motif; other site 452662004189 Walker B; other site 452662004190 D-loop; other site 452662004191 H-loop/switch region; other site 452662004192 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 452662004193 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 452662004194 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions; Region: PA_M28_2; cd04815 452662004195 PA/protease or protease-like domain interface [polypeptide binding]; other site 452662004196 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 452662004197 metal binding site [ion binding]; metal-binding site 452662004198 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 452662004199 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 452662004200 Walker A/P-loop; other site 452662004201 ATP binding site [chemical binding]; other site 452662004202 Q-loop/lid; other site 452662004203 ABC transporter signature motif; other site 452662004204 Walker B; other site 452662004205 D-loop; other site 452662004206 H-loop/switch region; other site 452662004207 ABC transporter; Region: ABC_tran_2; pfam12848 452662004208 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 452662004209 PAS fold; Region: PAS_7; pfam12860 452662004210 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 452662004211 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 452662004212 dimer interface [polypeptide binding]; other site 452662004213 phosphorylation site [posttranslational modification] 452662004214 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 452662004215 ATP binding site [chemical binding]; other site 452662004216 Mg2+ binding site [ion binding]; other site 452662004217 G-X-G motif; other site 452662004218 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 452662004219 Phosphotransferase enzyme family; Region: APH; pfam01636 452662004220 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 452662004221 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 452662004222 Substrate binding site; other site 452662004223 metal-binding site 452662004224 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 452662004225 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 452662004226 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 452662004227 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 452662004228 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662004229 Family description; Region: UvrD_C_2; cl15862 452662004230 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 452662004231 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 452662004232 catalytic residues [active] 452662004233 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 452662004234 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 452662004235 putative C-terminal domain interface [polypeptide binding]; other site 452662004236 putative GSH binding site (G-site) [chemical binding]; other site 452662004237 putative dimer interface [polypeptide binding]; other site 452662004238 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 452662004239 putative N-terminal domain interface [polypeptide binding]; other site 452662004240 putative dimer interface [polypeptide binding]; other site 452662004241 putative substrate binding pocket (H-site) [chemical binding]; other site 452662004242 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 452662004243 active site 452662004244 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 452662004245 heterotetramer interface [polypeptide binding]; other site 452662004246 active site pocket [active] 452662004247 cleavage site 452662004248 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 452662004249 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 452662004250 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 452662004251 nucleotide binding region [chemical binding]; other site 452662004252 SEC-C motif; Region: SEC-C; pfam02810 452662004253 Protein of unknown function (DUF983); Region: DUF983; cl02211 452662004254 Transglycosylase SLT domain; Region: SLT_2; pfam13406 452662004255 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 452662004256 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 452662004257 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 452662004258 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 452662004259 thymidylate kinase; Validated; Region: tmk; PRK00698 452662004260 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 452662004261 TMP-binding site; other site 452662004262 ATP-binding site [chemical binding]; other site 452662004263 DNA polymerase III subunit delta'; Validated; Region: PRK07471 452662004264 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662004265 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 452662004266 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 452662004267 active site 452662004268 HIGH motif; other site 452662004269 KMSKS motif; other site 452662004270 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 452662004271 tRNA binding surface [nucleotide binding]; other site 452662004272 anticodon binding site; other site 452662004273 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 452662004274 active site 452662004275 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 452662004276 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 452662004277 catalytic motif [active] 452662004278 Catalytic residue [active] 452662004279 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 452662004280 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 452662004281 putative substrate translocation pore; other site 452662004282 may be target duplication site 452662004283 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 452662004284 Helix-turn-helix domains; Region: HTH; cl00088 452662004285 Integrase core domain; Region: rve; cl01316 452662004286 may be target duplication site 452662004287 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 452662004288 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 452662004289 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 452662004290 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 452662004291 HflX GTPase family; Region: HflX; cd01878 452662004292 G1 box; other site 452662004293 GTP/Mg2+ binding site [chemical binding]; other site 452662004294 Switch I region; other site 452662004295 G2 box; other site 452662004296 G3 box; other site 452662004297 Switch II region; other site 452662004298 G4 box; other site 452662004299 G5 box; other site 452662004300 RNA-binding protein Hfq; Provisional; Region: PRK14091 452662004301 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 452662004302 Sm1 motif; other site 452662004303 intra - hexamer interaction site; other site 452662004304 inter - hexamer interaction site [polypeptide binding]; other site 452662004305 nucleotide binding pocket [chemical binding]; other site 452662004306 Sm2 motif; other site 452662004307 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 452662004308 Sm1 motif; other site 452662004309 D1 - D2 interaction site; other site 452662004310 D3 - B interaction site; other site 452662004311 Hfq - Hfq interaction site; other site 452662004312 RNA binding pocket [nucleotide binding]; other site 452662004313 Sm2 motif; other site 452662004314 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 452662004315 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 452662004316 active site 452662004317 phosphorylation site [posttranslational modification] 452662004318 intermolecular recognition site; other site 452662004319 dimerization interface [polypeptide binding]; other site 452662004320 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 452662004321 Walker A motif; other site 452662004322 ATP binding site [chemical binding]; other site 452662004323 Walker B motif; other site 452662004324 arginine finger; other site 452662004325 Helix-turn-helix domains; Region: HTH; cl00088 452662004326 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 452662004327 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 452662004328 dimerization interface [polypeptide binding]; other site 452662004329 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 452662004330 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 452662004331 dimer interface [polypeptide binding]; other site 452662004332 phosphorylation site [posttranslational modification] 452662004333 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 452662004334 ATP binding site [chemical binding]; other site 452662004335 Mg2+ binding site [ion binding]; other site 452662004336 G-X-G motif; other site 452662004337 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 452662004338 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 452662004339 active site 452662004340 phosphorylation site [posttranslational modification] 452662004341 intermolecular recognition site; other site 452662004342 dimerization interface [polypeptide binding]; other site 452662004343 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 452662004344 Walker A motif; other site 452662004345 ATP binding site [chemical binding]; other site 452662004346 Walker B motif; other site 452662004347 arginine finger; other site 452662004348 Helix-turn-helix domains; Region: HTH; cl00088 452662004349 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 452662004350 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 452662004351 phosphorylation site [posttranslational modification] 452662004352 dimer interface [polypeptide binding]; other site 452662004353 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 452662004354 ATP binding site [chemical binding]; other site 452662004355 Mg2+ binding site [ion binding]; other site 452662004356 G-X-G motif; other site 452662004357 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 452662004358 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 452662004359 FMN binding site [chemical binding]; other site 452662004360 active site 452662004361 catalytic residues [active] 452662004362 substrate binding site [chemical binding]; other site 452662004363 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 452662004364 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 452662004365 substrate binding site; other site 452662004366 dimer interface; other site 452662004367 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 452662004368 homotrimer interaction site [polypeptide binding]; other site 452662004369 zinc binding site [ion binding]; other site 452662004370 CDP-binding sites; other site 452662004371 Competence-damaged protein; Region: CinA; cl00666 452662004372 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 452662004373 putative coenzyme Q binding site [chemical binding]; other site 452662004374 lipoyl synthase; Provisional; Region: PRK05481 452662004375 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 452662004376 FeS/SAM binding site; other site 452662004377 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 452662004378 active site clefts [active] 452662004379 zinc binding site [ion binding]; other site 452662004380 dimer interface [polypeptide binding]; other site 452662004381 Uncharacterized conserved protein [Function unknown]; Region: COG1432 452662004382 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 452662004383 putative metal binding site [ion binding]; other site 452662004384 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 452662004385 Acylphosphatase; Region: Acylphosphatase; cl00551 452662004386 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 452662004387 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 452662004388 oligomerization interface [polypeptide binding]; other site 452662004389 active site 452662004390 NAD+ binding site [chemical binding]; other site 452662004391 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 452662004392 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 452662004393 catalytic triad [active] 452662004394 dimer interface [polypeptide binding]; other site 452662004395 AMP nucleosidase; Provisional; Region: PRK08292 452662004396 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 452662004397 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 452662004398 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 452662004399 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662004400 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 452662004401 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 452662004402 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662004403 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 452662004404 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 452662004405 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 452662004406 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662004407 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 452662004408 active site 452662004409 HslU subunit interaction site [polypeptide binding]; other site 452662004410 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 452662004411 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 452662004412 Walker A motif; other site 452662004413 ATP binding site [chemical binding]; other site 452662004414 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662004415 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 452662004416 prolyl-tRNA synthetase; Provisional; Region: PRK08661 452662004417 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_arch_euk; cd00778 452662004418 dimer interface [polypeptide binding]; other site 452662004419 motif 1; other site 452662004420 active site 452662004421 motif 2; other site 452662004422 motif 3; other site 452662004423 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 452662004424 anticodon binding site; other site 452662004425 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 452662004426 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 452662004427 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 452662004428 putative acyltransferase; Provisional; Region: PRK05790 452662004429 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 452662004430 dimer interface [polypeptide binding]; other site 452662004431 active site 452662004432 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 452662004433 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 452662004434 active site 452662004435 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 452662004436 dimer interface [polypeptide binding]; other site 452662004437 substrate binding site [chemical binding]; other site 452662004438 catalytic residues [active] 452662004439 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 452662004440 putative substrate translocation pore; other site 452662004441 metabolite-proton symporter; Region: 2A0106; TIGR00883 452662004442 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 452662004443 dimer interface [polypeptide binding]; other site 452662004444 putative tRNA-binding site [nucleotide binding]; other site 452662004445 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 452662004446 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 452662004447 ATP-grasp domain; Region: ATP-grasp_4; cl03087 452662004448 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 452662004449 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 452662004450 carboxyltransferase (CT) interaction site; other site 452662004451 biotinylation site [posttranslational modification]; other site 452662004452 biotin synthase; Region: bioB; TIGR00433 452662004453 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 452662004454 FeS/SAM binding site; other site 452662004455 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 452662004456 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 452662004457 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 452662004458 active site 452662004459 substrate binding site [chemical binding]; other site 452662004460 coenzyme B12 binding site [chemical binding]; other site 452662004461 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 452662004462 B12 binding site [chemical binding]; other site 452662004463 cobalt ligand [ion binding]; other site 452662004464 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 452662004465 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 452662004466 dimer interface [polypeptide binding]; other site 452662004467 substrate binding site [chemical binding]; other site 452662004468 metal binding site [ion binding]; metal-binding site 452662004469 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 452662004470 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 452662004471 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 452662004472 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 452662004473 non-specific DNA binding site [nucleotide binding]; other site 452662004474 salt bridge; other site 452662004475 sequence-specific DNA binding site [nucleotide binding]; other site 452662004476 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 452662004477 Domain of unknown function (DUF955); Region: DUF955; cl01076 452662004478 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 452662004479 Biofilm formation and stress response factor; Region: BsmA; cl01794 452662004480 glutathione reductase; Validated; Region: PRK06116 452662004481 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 452662004482 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 452662004483 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 452662004484 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 452662004485 active site 452662004486 dimer interface [polypeptide binding]; other site 452662004487 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 452662004488 dimer interface [polypeptide binding]; other site 452662004489 active site 452662004490 signal peptidase I; Provisional; Region: PRK10861 452662004491 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 452662004492 Catalytic site [active] 452662004493 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 452662004494 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 452662004495 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 452662004496 dimerization interface [polypeptide binding]; other site 452662004497 active site 452662004498 metal binding site [ion binding]; metal-binding site 452662004499 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 452662004500 dsRNA binding site [nucleotide binding]; other site 452662004501 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 452662004502 GIY-YIG motif/motif A; other site 452662004503 putative active site [active] 452662004504 putative metal binding site [ion binding]; other site 452662004505 GTPase Era; Reviewed; Region: era; PRK00089 452662004506 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 452662004507 G1 box; other site 452662004508 GTP/Mg2+ binding site [chemical binding]; other site 452662004509 Switch I region; other site 452662004510 G2 box; other site 452662004511 Switch II region; other site 452662004512 G3 box; other site 452662004513 G4 box; other site 452662004514 G5 box; other site 452662004515 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 452662004516 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 452662004517 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 452662004518 active site 452662004519 interdomain interaction site; other site 452662004520 putative metal-binding site [ion binding]; other site 452662004521 nucleotide binding site [chemical binding]; other site 452662004522 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 452662004523 domain I; other site 452662004524 DNA binding groove [nucleotide binding] 452662004525 phosphate binding site [ion binding]; other site 452662004526 domain II; other site 452662004527 domain III; other site 452662004528 nucleotide binding site [chemical binding]; other site 452662004529 catalytic site [active] 452662004530 domain IV; other site 452662004531 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 452662004532 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 452662004533 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 452662004534 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 452662004535 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 452662004536 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 452662004537 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 452662004538 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 452662004539 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 452662004540 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 452662004541 substrate-cofactor binding pocket; other site 452662004542 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452662004543 catalytic residue [active] 452662004544 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 452662004545 DNA ligase, ATP-dependent, PP_1105 family; Region: DNA_lig_bact; TIGR04120 452662004546 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 452662004547 active site 452662004548 DNA binding site [nucleotide binding] 452662004549 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 452662004550 DNA binding site [nucleotide binding] 452662004551 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 452662004552 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662004553 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 452662004554 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 452662004555 dimer interface [polypeptide binding]; other site 452662004556 active site 452662004557 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 452662004558 catalytic residues [active] 452662004559 substrate binding site [chemical binding]; other site 452662004560 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 452662004561 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 452662004562 catalytic residue [active] 452662004563 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 452662004564 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; cl15754 452662004565 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 452662004566 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 452662004567 putative ATP binding site [chemical binding]; other site 452662004568 putative substrate binding site [chemical binding]; other site 452662004569 N-formylglutamate amidohydrolase; Region: FGase; cl01522 452662004570 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 452662004571 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 452662004572 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 452662004573 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662004574 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 452662004575 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 452662004576 active site 452662004577 Fe-S cluster binding site [ion binding]; other site 452662004578 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 452662004579 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 452662004580 N-acetyl-D-glucosamine binding site [chemical binding]; other site 452662004581 catalytic residue [active] 452662004582 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 452662004583 MPT binding site; other site 452662004584 trimer interface [polypeptide binding]; other site 452662004585 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 452662004586 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 452662004587 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 452662004588 FeS/SAM binding site; other site 452662004589 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 452662004590 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 452662004591 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 452662004592 generic binding surface II; other site 452662004593 generic binding surface I; other site 452662004594 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 452662004595 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 452662004596 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 452662004597 metal binding site [ion binding]; metal-binding site 452662004598 active site 452662004599 I-site; other site 452662004600 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 452662004601 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 452662004602 Walker A/P-loop; other site 452662004603 ATP binding site [chemical binding]; other site 452662004604 Q-loop/lid; other site 452662004605 ABC transporter signature motif; other site 452662004606 Walker B; other site 452662004607 D-loop; other site 452662004608 H-loop/switch region; other site 452662004609 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 452662004610 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 452662004611 FtsX-like permease family; Region: FtsX; cl15850 452662004612 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 452662004613 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 452662004614 putative dimer interface [polypeptide binding]; other site 452662004615 K+ potassium transporter; Region: K_trans; cl15781 452662004616 potassium uptake protein; Region: kup; TIGR00794 452662004617 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 452662004618 Cytochrome C biogenesis protein; Region: CcmH; cl01179 452662004619 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 452662004620 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 452662004621 CcmE; Region: CcmE; cl00994 452662004622 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 452662004623 amidophosphoribosyltransferase; Provisional; Region: PRK09123 452662004624 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 452662004625 active site 452662004626 tetramer interface [polypeptide binding]; other site 452662004627 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 452662004628 active site 452662004629 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662004630 short chain dehydrogenase; Provisional; Region: PRK06924 452662004631 NAD(P) binding site [chemical binding]; other site 452662004632 active site 452662004633 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 452662004634 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 452662004635 S-adenosylmethionine binding site [chemical binding]; other site 452662004636 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 452662004637 DNA photolyase; Region: DNA_photolyase; pfam00875 452662004638 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 452662004639 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 452662004640 putative active site [active] 452662004641 Ap4A binding site [chemical binding]; other site 452662004642 nudix motif; other site 452662004643 putative metal binding site [ion binding]; other site 452662004644 Protein of unknown function, DUF481; Region: DUF481; cl01213 452662004645 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 452662004646 Peptidase family M20/M25/M40; Region: Peptidase_M20; pfam01546 452662004647 metal binding site [ion binding]; metal-binding site 452662004648 dimer interface [polypeptide binding]; other site 452662004649 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 452662004650 Succinylarginine dihydrolase; Region: AstB; cl01511 452662004651 cobyric acid synthase; Provisional; Region: PRK00784 452662004652 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662004653 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662004654 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 452662004655 catalytic triad [active] 452662004656 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 452662004657 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 452662004658 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 452662004659 Walker A/P-loop; other site 452662004660 ATP binding site [chemical binding]; other site 452662004661 Q-loop/lid; other site 452662004662 ABC transporter signature motif; other site 452662004663 Walker B; other site 452662004664 D-loop; other site 452662004665 H-loop/switch region; other site 452662004666 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 452662004667 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662004668 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662004669 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_3; cd03813 452662004670 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 452662004671 TM1410 hypothetical-related protein; Region: DUF297; cl00997 452662004672 Predicted membrane protein [Function unknown]; Region: COG4267 452662004673 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 452662004674 Cadherin repeat-like domain; Region: CA_like; cl15786 452662004675 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 452662004676 Ca2+ binding site [ion binding]; other site 452662004677 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 452662004678 Ca2+ binding site [ion binding]; other site 452662004679 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 452662004680 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 452662004681 TM1410 hypothetical-related protein; Region: DUF297; cl00997 452662004682 Uncharacterized conserved protein [Function unknown]; Region: COG3743 452662004683 pyruvate phosphate dikinase; Provisional; Region: PRK09279 452662004684 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 452662004685 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 452662004686 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 452662004687 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 452662004688 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 452662004689 dimer interface [polypeptide binding]; other site 452662004690 motif 1; other site 452662004691 active site 452662004692 motif 2; other site 452662004693 motif 3; other site 452662004694 TraB family; Region: TraB; cl12050 452662004695 TraB family; Region: TraB; cl12050 452662004696 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 452662004697 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 452662004698 5S rRNA interface [nucleotide binding]; other site 452662004699 CTC domain interface [polypeptide binding]; other site 452662004700 L16 interface [polypeptide binding]; other site 452662004701 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 452662004702 putative active site [active] 452662004703 catalytic residue [active] 452662004704 phosphoglucomutase; Region: PLN02307 452662004705 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 452662004706 substrate binding site [chemical binding]; other site 452662004707 dimer interface [polypeptide binding]; other site 452662004708 active site 452662004709 metal binding site [ion binding]; metal-binding site 452662004710 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 452662004711 GTP-binding protein YchF; Reviewed; Region: PRK09601 452662004712 YchF GTPase; Region: YchF; cd01900 452662004713 G1 box; other site 452662004714 GTP/Mg2+ binding site [chemical binding]; other site 452662004715 Switch I region; other site 452662004716 G2 box; other site 452662004717 Switch II region; other site 452662004718 G3 box; other site 452662004719 G4 box; other site 452662004720 G5 box; other site 452662004721 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 452662004722 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 452662004723 putative active site [active] 452662004724 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 452662004725 Sulfatase; Region: Sulfatase; cl10460 452662004726 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 452662004727 putative active site [active] 452662004728 putative catalytic site [active] 452662004729 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 452662004730 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 452662004731 ATP binding site [chemical binding]; other site 452662004732 Mg2+ binding site [ion binding]; other site 452662004733 G-X-G motif; other site 452662004734 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 452662004735 ATP binding site [chemical binding]; other site 452662004736 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 452662004737 rod shape-determining protein MreB; Provisional; Region: PRK13927 452662004738 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 452662004739 ATP binding site [chemical binding]; other site 452662004740 profilin binding site; other site 452662004741 rod shape-determining protein MreC; Region: MreC; pfam04085 452662004742 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 452662004743 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 452662004744 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 452662004745 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 452662004746 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 452662004747 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 452662004748 Restriction endonuclease; Region: Mrr_cat; cl00516 452662004749 TrwC relaxase; Region: TrwC; pfam08751 452662004750 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 452662004751 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662004752 Family description; Region: UvrD_C_2; cl15862 452662004753 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662004754 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 452662004755 Walker A motif; other site 452662004756 ATP binding site [chemical binding]; other site 452662004757 Walker B motif; other site 452662004758 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 452662004759 Protein of unknown function (DUF736); Region: DUF736; cl02303 452662004760 Helix-turn-helix domains; Region: HTH; cl00088 452662004761 Winged helix-turn helix; Region: HTH_29; pfam13551 452662004762 Helix-turn-helix domains; Region: HTH; cl00088 452662004763 Integrase core domain; Region: rve; cl01316 452662004764 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 452662004765 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 452662004766 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 452662004767 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 452662004768 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662004769 substrate interface [chemical binding]; other site 452662004770 Domain of unknown function (DUF2016); Region: DUF2016; pfam09436 452662004771 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 452662004772 Prokaryotic E2 family D; Region: Prok-E2_D; cl14019 452662004773 Prokaryotic Ubiquitin; Region: Prok_Ub; cl14020 452662004774 PRTRC system protein E; Region: PRTRC_E; TIGR03741 452662004775 ParB-like nuclease domain; Region: ParBc; cl02129 452662004776 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 452662004777 Helix-turn-helix domains; Region: HTH; cl00088 452662004778 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 452662004779 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662004780 Walker A/P-loop; other site 452662004781 ATP binding site [chemical binding]; other site 452662004782 Q-loop/lid; other site 452662004783 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 452662004784 Protein of unknown function (DUF1419); Region: DUF1419; pfam07215 452662004785 Domain of unknown function (DUF4262); Region: DUF4262; pfam14081 452662004786 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 452662004787 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662004788 Integrase core domain; Region: rve; cl01316 452662004789 DDE domain; Region: DDE_Tnp_IS240; pfam13610 452662004790 Integrase core domain; Region: rve; cl01316 452662004791 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 452662004792 Predicted esterase [General function prediction only]; Region: COG0400 452662004793 FAD binding domain; Region: FAD_binding_2; pfam00890 452662004794 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12835 452662004795 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 452662004796 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662004797 NAD(P) binding site [chemical binding]; other site 452662004798 active site 452662004799 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662004800 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 452662004801 NAD(P) binding site [chemical binding]; other site 452662004802 active site 452662004803 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 452662004804 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 452662004805 active site 452662004806 glutathione reductase; Validated; Region: PRK06116 452662004807 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 452662004808 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 452662004809 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 452662004810 putative MPT binding site; other site 452662004811 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 452662004812 XdhC Rossmann domain; Region: XdhC_C; pfam13478 452662004813 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 452662004814 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 452662004815 N-terminal plug; other site 452662004816 ligand-binding site [chemical binding]; other site 452662004817 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 452662004818 E3 interaction surface; other site 452662004819 lipoyl attachment site [posttranslational modification]; other site 452662004820 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 452662004821 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 452662004822 alpha subunit interface [polypeptide binding]; other site 452662004823 TPP binding site [chemical binding]; other site 452662004824 heterodimer interface [polypeptide binding]; other site 452662004825 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 452662004826 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 452662004827 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 452662004828 tetramer interface [polypeptide binding]; other site 452662004829 TPP-binding site [chemical binding]; other site 452662004830 heterodimer interface [polypeptide binding]; other site 452662004831 phosphorylation loop region [posttranslational modification] 452662004832 cyclohexanecarboxylate-CoA ligase; Reviewed; Region: PRK13295 452662004833 AMP-binding enzyme; Region: AMP-binding; cl15778 452662004834 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 452662004835 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 452662004836 Helix-turn-helix domains; Region: HTH; cl00088 452662004837 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 452662004838 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662004839 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 452662004840 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662004841 NAD(P) binding site [chemical binding]; other site 452662004842 active site 452662004843 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 452662004844 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 452662004845 putative active site [active] 452662004846 putative substrate binding site [chemical binding]; other site 452662004847 ATP binding site [chemical binding]; other site 452662004848 Prostaglandin dehydrogenases; Region: PGDH; cd05288 452662004849 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 452662004850 NAD(P) binding site [chemical binding]; other site 452662004851 substrate binding site [chemical binding]; other site 452662004852 dimer interface [polypeptide binding]; other site 452662004853 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 452662004854 active site 452662004855 Integrase core domain; Region: rve; cl01316 452662004856 DDE domain; Region: DDE_Tnp_IS240; pfam13610 452662004857 Integrase core domain; Region: rve; cl01316 452662004858 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 452662004859 NAD(P) binding site [chemical binding]; other site 452662004860 catalytic residues [active] 452662004861 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 452662004862 Major Facilitator Superfamily; Region: MFS_1; pfam07690 452662004863 putative substrate translocation pore; other site 452662004864 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 452662004865 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662004866 NAD(P) binding site [chemical binding]; other site 452662004867 active site 452662004868 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 452662004869 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 452662004870 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 452662004871 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 452662004872 Transcriptional regulator [Transcription]; Region: IclR; COG1414 452662004873 Helix-turn-helix domains; Region: HTH; cl00088 452662004874 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 452662004875 Amidase; Region: Amidase; cl11426 452662004876 Transposase, Mutator family; Region: Transposase_mut; pfam00872 452662004877 potential frameshift: common BLAST hit: gi|85373170|ref|YP_457232.1| dipeptidyl aminopeptidase 452662004878 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 452662004879 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662004880 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662004881 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 452662004882 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 452662004883 metal binding site 2 [ion binding]; metal-binding site 452662004884 putative DNA binding helix; other site 452662004885 metal binding site 1 [ion binding]; metal-binding site 452662004886 dimer interface [polypeptide binding]; other site 452662004887 structural Zn2+ binding site [ion binding]; other site 452662004888 Helix-turn-helix domains; Region: HTH; cl00088 452662004889 metal binding site 2 [ion binding]; metal-binding site 452662004890 putative DNA binding helix; other site 452662004891 metal binding site 1 [ion binding]; metal-binding site 452662004892 dimer interface [polypeptide binding]; other site 452662004893 structural Zn2+ binding site [ion binding]; other site 452662004894 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 452662004895 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 452662004896 N-terminal plug; other site 452662004897 ligand-binding site [chemical binding]; other site 452662004898 Helix-turn-helix domains; Region: HTH; cl00088 452662004899 metal binding site 2 [ion binding]; metal-binding site 452662004900 putative DNA binding helix; other site 452662004901 metal binding site 1 [ion binding]; metal-binding site 452662004902 dimer interface [polypeptide binding]; other site 452662004903 structural Zn2+ binding site [ion binding]; other site 452662004904 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 452662004905 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 452662004906 N-terminal plug; other site 452662004907 ligand-binding site [chemical binding]; other site 452662004908 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 452662004909 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 452662004910 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 452662004911 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 452662004912 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 452662004913 Walker A/P-loop; other site 452662004914 ATP binding site [chemical binding]; other site 452662004915 Q-loop/lid; other site 452662004916 ABC transporter signature motif; other site 452662004917 Walker B; other site 452662004918 D-loop; other site 452662004919 H-loop/switch region; other site 452662004920 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 452662004921 catalytic residues [active] 452662004922 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 452662004923 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662004924 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 452662004925 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 452662004926 Helix-turn-helix domains; Region: HTH; cl00088 452662004927 metal binding site 2 [ion binding]; metal-binding site 452662004928 putative DNA binding helix; other site 452662004929 metal binding site 1 [ion binding]; metal-binding site 452662004930 dimer interface [polypeptide binding]; other site 452662004931 structural Zn2+ binding site [ion binding]; other site 452662004932 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662004933 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662004934 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 452662004935 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 452662004936 Walker A/P-loop; other site 452662004937 ATP binding site [chemical binding]; other site 452662004938 Q-loop/lid; other site 452662004939 ABC transporter signature motif; other site 452662004940 Walker B; other site 452662004941 D-loop; other site 452662004942 H-loop/switch region; other site 452662004943 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 452662004944 ABC-2 type transporter; Region: ABC2_membrane; cl11417 452662004945 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 452662004946 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 452662004947 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 452662004948 N-terminal plug; other site 452662004949 ligand-binding site [chemical binding]; other site 452662004950 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 452662004951 active site 452662004952 DNA binding site [nucleotide binding] 452662004953 Int/Topo IB signature motif; other site 452662004954 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 452662004955 Helix-turn-helix domains; Region: HTH; cl00088 452662004956 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 452662004957 Bacterial sugar transferase; Region: Bac_transf; cl00939 452662004958 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl12051 452662004959 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 452662004960 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 452662004961 SLBB domain; Region: SLBB; pfam10531 452662004962 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 452662004963 AAA domain; Region: AAA_22; pfam13401 452662004964 Walker A motif; other site 452662004965 ATP binding site [chemical binding]; other site 452662004966 Walker B motif; other site 452662004967 arginine finger; other site 452662004968 chain length determinant protein EpsF; Region: EpsF; TIGR03017 452662004969 Chain length determinant protein; Region: Wzz; cl15801 452662004970 Chain length determinant protein; Region: Wzz; cl15801 452662004971 chain length determinant protein tyrosine kinase EpsG; Region: EpsG; TIGR03029 452662004972 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662004973 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 452662004974 MatE; Region: MatE; cl10513 452662004975 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 452662004976 O-Antigen ligase; Region: Wzy_C; cl04850 452662004977 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 452662004978 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 452662004979 active site 452662004980 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 452662004981 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 452662004982 active site 452662004983 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 452662004984 active site 452662004985 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 452662004986 OpgC protein; Region: OpgC_C; cl00792 452662004987 Acyltransferase family; Region: Acyl_transf_3; pfam01757 452662004988 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 452662004989 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 452662004990 active site 452662004991 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 452662004992 active site 452662004993 catalytic residues [active] 452662004994 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 452662004995 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662004996 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 452662004997 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662004998 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 452662004999 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 452662005000 putative MPT binding site; other site 452662005001 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 452662005002 active site 452662005003 Nitrogen regulatory protein P-II; Region: P-II; cl00412 452662005004 Nitrogen regulatory protein P-II; Region: P-II; smart00938 452662005005 glutamine synthetase; Provisional; Region: glnA; PRK09469 452662005006 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 452662005007 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 452662005008 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 452662005009 FMN binding site [chemical binding]; other site 452662005010 substrate binding site [chemical binding]; other site 452662005011 putative catalytic residue [active] 452662005012 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 452662005013 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 452662005014 MPN+ (JAMM) motif; other site 452662005015 Zinc-binding site [ion binding]; other site 452662005016 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 452662005017 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 452662005018 RNA binding surface [nucleotide binding]; other site 452662005019 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 452662005020 active site 452662005021 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 452662005022 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 452662005023 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 452662005024 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 452662005025 DNA binding residues [nucleotide binding] 452662005026 Transglycosylase; Region: Transgly; cl07896 452662005027 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 452662005028 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662005029 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662005030 recognition site for restriction enzyme SwaI 452662005031 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 452662005032 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 452662005033 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 452662005034 Walker A motif; other site 452662005035 ATP binding site [chemical binding]; other site 452662005036 Walker B motif; other site 452662005037 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 452662005038 Clp protease; Region: CLP_protease; pfam00574 452662005039 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 452662005040 oligomer interface [polypeptide binding]; other site 452662005041 active site residues [active] 452662005042 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 452662005043 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 452662005044 Ligand binding site; other site 452662005045 Putative Catalytic site; other site 452662005046 DXD motif; other site 452662005047 trigger factor; Provisional; Region: tig; PRK01490 452662005048 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 452662005049 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 452662005050 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 452662005051 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 452662005052 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 452662005053 DNA binding residues [nucleotide binding] 452662005054 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 452662005055 FecR protein; Region: FecR; pfam04773 452662005056 NAD-dependent deacetylase; Provisional; Region: PRK00481 452662005057 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 452662005058 NAD+ binding site [chemical binding]; other site 452662005059 substrate binding site [chemical binding]; other site 452662005060 Zn binding site [ion binding]; other site 452662005061 dihydrodipicolinate reductase; Provisional; Region: PRK00048 452662005062 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662005063 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 452662005064 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 452662005065 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 452662005066 minor groove reading motif; other site 452662005067 helix-hairpin-helix signature motif; other site 452662005068 substrate binding pocket [chemical binding]; other site 452662005069 active site 452662005070 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 452662005071 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 452662005072 C-terminal domain interface [polypeptide binding]; other site 452662005073 GSH binding site (G-site) [chemical binding]; other site 452662005074 dimer interface [polypeptide binding]; other site 452662005075 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 452662005076 N-terminal domain interface [polypeptide binding]; other site 452662005077 dimer interface [polypeptide binding]; other site 452662005078 substrate binding pocket (H-site) [chemical binding]; other site 452662005079 haloalkane dehalogenase; Provisional; Region: PRK03592 452662005080 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 452662005081 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 452662005082 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 452662005083 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 452662005084 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 452662005085 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 452662005086 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 452662005087 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 452662005088 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 452662005089 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 452662005090 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 452662005091 Uncharacterized conserved protein [Function unknown]; Region: COG2128 452662005092 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 452662005093 transcriptional regulator; Provisional; Region: PRK10632 452662005094 Helix-turn-helix domains; Region: HTH; cl00088 452662005095 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 452662005096 dimerization interface [polypeptide binding]; other site 452662005097 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_family; cd02803 452662005098 active site 452662005099 FMN binding site [chemical binding]; other site 452662005100 substrate binding site [chemical binding]; other site 452662005101 putative catalytic residue [active] 452662005102 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 452662005103 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 452662005104 putative NAD(P) binding site [chemical binding]; other site 452662005105 active site 452662005106 YjgH belongs 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 similarity and no...; Region: YjgH_like; cd02198 452662005107 homotrimer interaction site [polypeptide binding]; other site 452662005108 putative active site [active] 452662005109 LysR family transcriptional regulator; Provisional; Region: PRK14997 452662005110 Helix-turn-helix domains; Region: HTH; cl00088 452662005111 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 452662005112 putative effector binding pocket; other site 452662005113 dimerization interface [polypeptide binding]; other site 452662005114 potential frameshift: common BLAST hit: gi|254784278|ref|YP_003071706.1| antioxidant, AhpC/TSA family protein 452662005115 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 452662005116 putative catalytic residues [active] 452662005117 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 452662005118 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 452662005119 putative catalytic residues [active] 452662005120 AhpC/TSA antioxidant enzyme; Region: AhpC-TSA_2; pfam13911 452662005121 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 452662005122 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 452662005123 C-terminal domain interface [polypeptide binding]; other site 452662005124 GSH binding site (G-site) [chemical binding]; other site 452662005125 dimer interface [polypeptide binding]; other site 452662005126 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 452662005127 N-terminal domain interface [polypeptide binding]; other site 452662005128 dimer interface [polypeptide binding]; other site 452662005129 substrate binding pocket (H-site) [chemical binding]; other site 452662005130 putative S-transferase; Provisional; Region: PRK11752 452662005131 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 452662005132 C-terminal domain interface [polypeptide binding]; other site 452662005133 GSH binding site (G-site) [chemical binding]; other site 452662005134 dimer interface [polypeptide binding]; other site 452662005135 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 452662005136 dimer interface [polypeptide binding]; other site 452662005137 N-terminal domain interface [polypeptide binding]; other site 452662005138 active site 452662005139 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 452662005140 Helix-turn-helix domains; Region: HTH; cl00088 452662005141 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 452662005142 dimerization interface [polypeptide binding]; other site 452662005143 substrate binding pocket [chemical binding]; other site 452662005144 Protein of unknown function (DUF2274); Region: DUF2274; cl02406 452662005145 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 452662005146 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 452662005147 VirB7 interaction site; other site 452662005148 VirB8 protein; Region: VirB8; cl01500 452662005149 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 452662005150 conjugal transfer protein TrbL; Provisional; Region: PRK13875 452662005151 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 452662005152 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 452662005153 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 452662005154 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662005155 Walker A/P-loop; other site 452662005156 ATP binding site [chemical binding]; other site 452662005157 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 452662005158 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 452662005159 TrbC/VIRB2 family; Region: TrbC; cl01583 452662005160 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 452662005161 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 452662005162 ATP binding site [chemical binding]; other site 452662005163 Walker A motif; other site 452662005164 hexamer interface [polypeptide binding]; other site 452662005165 Walker B motif; other site 452662005166 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 452662005167 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 452662005168 Walker A motif; other site 452662005169 ATP binding site [chemical binding]; other site 452662005170 Walker B motif; other site 452662005171 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 452662005172 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 452662005173 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 452662005174 N-acetyl-D-glucosamine binding site [chemical binding]; other site 452662005175 catalytic residue [active] 452662005176 Protein of unknown function (DUF736); Region: DUF736; cl02303 452662005177 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 452662005178 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 452662005179 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 452662005180 ParA-like protein; Provisional; Region: PHA02518 452662005181 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 452662005182 P-loop; other site 452662005183 Magnesium ion binding site [ion binding]; other site 452662005184 Replication initiator protein A; Region: RPA; cl02339 452662005185 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 452662005186 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 452662005187 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 452662005188 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 452662005189 dimer interface [polypeptide binding]; other site 452662005190 ssDNA binding site [nucleotide binding]; other site 452662005191 tetramer (dimer of dimers) interface [polypeptide binding]; other site 452662005192 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 452662005193 hypothetical protein; Validated; Region: PRK07078 452662005194 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 452662005195 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 452662005196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662005197 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662005198 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662005199 ParB-like nuclease domain; Region: ParBc; cl02129 452662005200 plasmid partitioning protein; Provisional; Region: PRK13832 452662005201 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 452662005202 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 452662005203 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 452662005204 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 452662005205 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 452662005206 Domain of unknown function (DUF955); Region: DUF955; cl01076 452662005207 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 452662005208 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662005209 Family description; Region: UvrD_C_2; cl15862 452662005210 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 452662005211 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 452662005212 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 452662005213 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 452662005214 hypothetical protein; Provisional; Region: PRK06153 452662005215 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 452662005216 ATP binding site [chemical binding]; other site 452662005217 substrate interface [chemical binding]; other site 452662005218 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 452662005219 active site 452662005220 DNA binding site [nucleotide binding] 452662005221 Int/Topo IB signature motif; other site 452662005222 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 452662005223 DNA binding site [nucleotide binding] 452662005224 active site 452662005225 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 452662005226 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 452662005227 Protein export membrane protein; Region: SecD_SecF; cl14618 452662005228 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 452662005229 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662005230 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662005231 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 452662005232 Helix-turn-helix domains; Region: HTH; cl00088 452662005233 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 452662005234 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 452662005235 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 452662005236 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 452662005237 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 452662005238 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 452662005239 ATP binding site [chemical binding]; other site 452662005240 Mg++ binding site [ion binding]; other site 452662005241 motif III; other site 452662005242 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 452662005243 nucleotide binding region [chemical binding]; other site 452662005244 ATP-binding site [chemical binding]; other site 452662005245 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 452662005246 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 452662005247 NifU-like domain; Region: NifU; cl00484 452662005248 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 452662005249 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 452662005250 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 452662005251 Coenzyme A binding pocket [chemical binding]; other site 452662005252 recognition site for restriction enzyme SwaI 452662005253 Predicted transcriptional regulator [Transcription]; Region: COG4957 452662005254 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 452662005255 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 452662005256 metal binding site 2 [ion binding]; metal-binding site 452662005257 putative DNA binding helix; other site 452662005258 metal binding site 1 [ion binding]; metal-binding site 452662005259 dimer interface [polypeptide binding]; other site 452662005260 structural Zn2+ binding site [ion binding]; other site 452662005261 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 452662005262 putative acyl-acceptor binding pocket; other site 452662005263 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 452662005264 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 452662005265 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 452662005266 FeS/SAM binding site; other site 452662005267 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 452662005268 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662005269 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 452662005270 FOG: CBS domain [General function prediction only]; Region: COG0517 452662005271 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 452662005272 Transporter associated domain; Region: CorC_HlyC; cl08393 452662005273 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 452662005274 active site 452662005275 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 452662005276 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662005277 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 452662005278 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 452662005279 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 452662005280 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 452662005281 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 452662005282 E3 interaction surface; other site 452662005283 lipoyl attachment site [posttranslational modification]; other site 452662005284 e3 binding domain; Region: E3_binding; pfam02817 452662005285 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 452662005286 ABC-2 type transporter; Region: ABC2_membrane; cl11417 452662005287 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 452662005288 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662005289 Walker A/P-loop; other site 452662005290 ATP binding site [chemical binding]; other site 452662005291 Q-loop/lid; other site 452662005292 ABC transporter signature motif; other site 452662005293 Walker B; other site 452662005294 D-loop; other site 452662005295 H-loop/switch region; other site 452662005296 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662005297 Transcriptional regulator [Transcription]; Region: LysR; COG0583 452662005298 Helix-turn-helix domains; Region: HTH; cl00088 452662005299 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 452662005300 dimerization interface [polypeptide binding]; other site 452662005301 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 452662005302 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 452662005303 substrate binding pocket [chemical binding]; other site 452662005304 FAD binding site [chemical binding]; other site 452662005305 catalytic base [active] 452662005306 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 452662005307 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 452662005308 substrate binding site [chemical binding]; other site 452662005309 oxyanion hole (OAH) forming residues; other site 452662005310 trimer interface [polypeptide binding]; other site 452662005311 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 452662005312 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 452662005313 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662005314 enoyl-CoA hydratase; Provisional; Region: PRK05862 452662005315 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 452662005316 substrate binding site [chemical binding]; other site 452662005317 oxyanion hole (OAH) forming residues; other site 452662005318 trimer interface [polypeptide binding]; other site 452662005319 pteridine reductase; Provisional; Region: PRK09135 452662005320 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662005321 NAD(P) binding site [chemical binding]; other site 452662005322 active site 452662005323 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 452662005324 GTP cyclohydrolase I; Provisional; Region: PLN03044 452662005325 active site 452662005326 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 452662005327 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 452662005328 Ligand binding site; other site 452662005329 metal-binding site 452662005330 Transmembrane secretion effector; Region: MFS_3; pfam05977 452662005331 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 452662005332 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 452662005333 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 452662005334 dimer interface [polypeptide binding]; other site 452662005335 active site 452662005336 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 452662005337 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 452662005338 substrate binding site [chemical binding]; other site 452662005339 oxyanion hole (OAH) forming residues; other site 452662005340 trimer interface [polypeptide binding]; other site 452662005341 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662005342 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 452662005343 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 452662005344 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 452662005345 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 452662005346 NAD binding site [chemical binding]; other site 452662005347 homodimer interface [polypeptide binding]; other site 452662005348 active site 452662005349 substrate binding site [chemical binding]; other site 452662005350 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 452662005351 putative active site [active] 452662005352 aspartate aminotransferase; Provisional; Region: PRK05764 452662005353 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 452662005354 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452662005355 homodimer interface [polypeptide binding]; other site 452662005356 catalytic residue [active] 452662005357 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 452662005358 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 452662005359 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 452662005360 Dehydratase family; Region: ILVD_EDD; cl00340 452662005361 6-phosphogluconate dehydratase; Region: edd; TIGR01196 452662005362 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 452662005363 glucokinase, proteobacterial type; Region: glk; TIGR00749 452662005364 KDPG and KHG aldolase; Region: Aldolase; pfam01081 452662005365 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 452662005366 active site 452662005367 intersubunit interface [polypeptide binding]; other site 452662005368 catalytic residue [active] 452662005369 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 452662005370 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 452662005371 trimer interface [polypeptide binding]; other site 452662005372 putative metal binding site [ion binding]; other site 452662005373 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 452662005374 dimer interface [polypeptide binding]; other site 452662005375 allosteric magnesium binding site [ion binding]; other site 452662005376 active site 452662005377 aspartate-rich active site metal binding site; other site 452662005378 Schiff base residues; other site 452662005379 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 452662005380 PA_M28_1_1: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 1. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_1; cd04820 452662005381 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 452662005382 PA/protease or protease-like domain interface [polypeptide binding]; other site 452662005383 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_2; cd05661 452662005384 metal binding site [ion binding]; metal-binding site 452662005385 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 452662005386 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 452662005387 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 452662005388 metabolite-proton symporter; Region: 2A0106; TIGR00883 452662005389 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 452662005390 putative substrate translocation pore; other site 452662005391 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 452662005392 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 452662005393 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 452662005394 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 452662005395 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 452662005396 D-pathway; other site 452662005397 Putative ubiquinol binding site [chemical binding]; other site 452662005398 Low-spin heme (heme b) binding site [chemical binding]; other site 452662005399 Putative water exit pathway; other site 452662005400 Binuclear center (heme o3/CuB) [ion binding]; other site 452662005401 K-pathway; other site 452662005402 Putative proton exit pathway; other site 452662005403 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 452662005404 Subunit I/III interface [polypeptide binding]; other site 452662005405 Subunit III/IV interface [polypeptide binding]; other site 452662005406 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 452662005407 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 452662005408 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 452662005409 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 452662005410 ATP binding site [chemical binding]; other site 452662005411 Mg2+ binding site [ion binding]; other site 452662005412 G-X-G motif; other site 452662005413 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 452662005414 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 452662005415 active site 452662005416 phosphorylation site [posttranslational modification] 452662005417 intermolecular recognition site; other site 452662005418 dimerization interface [polypeptide binding]; other site 452662005419 Helix-turn-helix domains; Region: HTH; cl00088 452662005420 potential frameshift: common BLAST hit: gi|103486540|ref|YP_616101.1| DEAD/DEAH box helicase-like protein 452662005421 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 452662005422 nucleotide binding region [chemical binding]; other site 452662005423 ATP-binding site [chemical binding]; other site 452662005424 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 452662005425 ATP binding site [chemical binding]; other site 452662005426 Mg++ binding site [ion binding]; other site 452662005427 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 452662005428 FAD binding domain; Region: FAD_binding_4; pfam01565 452662005429 SapC; Region: SapC; pfam07277 452662005430 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 452662005431 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl12051 452662005432 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 452662005433 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662005434 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 452662005435 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662005436 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 452662005437 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 452662005438 octamer interface [polypeptide binding]; other site 452662005439 active site 452662005440 Helix-turn-helix domains; Region: HTH; cl00088 452662005441 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 452662005442 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 452662005443 dimerization interface [polypeptide binding]; other site 452662005444 chlorocatechol 1,2-dioxygenases (1,2-CCDs) (type II enzymes) are homodimeric intradiol dioxygenases that degrade chlorocatechols via the addition of molecular oxygen and the subsequent cleavage between two adjacent hydroxyl groups. This reaction is part...; Region: 1,2-CCD; cd03462 452662005445 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 452662005446 dimer interface [polypeptide binding]; other site 452662005447 active site 452662005448 Dienelactone hydrolase family; Region: DLH; pfam01738 452662005449 FAD binding domain; Region: FAD_binding_3; pfam01494 452662005450 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 452662005451 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662005452 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 452662005453 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662005454 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 452662005455 active site 452662005456 dimer interface [polypeptide binding]; other site 452662005457 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 452662005458 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 452662005459 N-terminal plug; other site 452662005460 ligand-binding site [chemical binding]; other site 452662005461 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 452662005462 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 452662005463 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 452662005464 Chromate transporter; Region: Chromate_transp; pfam02417 452662005465 Chromate transporter; Region: Chromate_transp; pfam02417 452662005466 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 452662005467 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 452662005468 ring oligomerisation interface [polypeptide binding]; other site 452662005469 ATP/Mg binding site [chemical binding]; other site 452662005470 stacking interactions; other site 452662005471 hinge regions; other site 452662005472 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 452662005473 oligomerisation interface [polypeptide binding]; other site 452662005474 mobile loop; other site 452662005475 roof hairpin; other site 452662005476 putative S-transferase; Provisional; Region: PRK11752 452662005477 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 452662005478 C-terminal domain interface [polypeptide binding]; other site 452662005479 GSH binding site (G-site) [chemical binding]; other site 452662005480 dimer interface [polypeptide binding]; other site 452662005481 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 452662005482 dimer interface [polypeptide binding]; other site 452662005483 N-terminal domain interface [polypeptide binding]; other site 452662005484 active site 452662005485 DNA gyrase subunit A; Validated; Region: PRK05560 452662005486 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 452662005487 CAP-like domain; other site 452662005488 active site 452662005489 primary dimer interface [polypeptide binding]; other site 452662005490 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 452662005491 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 452662005492 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 452662005493 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 452662005494 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 452662005495 Protein of unknown function (DUF952); Region: DUF952; cl01393 452662005496 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 452662005497 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 452662005498 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 452662005499 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 452662005500 putative acyl-acceptor binding pocket; other site 452662005501 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 452662005502 active site 452662005503 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 452662005504 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 452662005505 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452662005506 catalytic residue [active] 452662005507 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 452662005508 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 452662005509 substrate binding site [chemical binding]; other site 452662005510 active site 452662005511 catalytic residues [active] 452662005512 heterodimer interface [polypeptide binding]; other site 452662005513 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 452662005514 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 452662005515 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 452662005516 muropeptide transporter; Reviewed; Region: ampG; PRK11902 452662005517 muropeptide transporter; Validated; Region: ampG; PRK11010 452662005518 Response regulator receiver domain; Region: Response_reg; pfam00072 452662005519 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 452662005520 active site 452662005521 phosphorylation site [posttranslational modification] 452662005522 intermolecular recognition site; other site 452662005523 dimerization interface [polypeptide binding]; other site 452662005524 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 452662005525 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 452662005526 RNA binding surface [nucleotide binding]; other site 452662005527 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 452662005528 active site 452662005529 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; cl15754 452662005530 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 452662005531 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 452662005532 Family description; Region: UvrD_C_2; cl15862 452662005533 TIGR02300 family protein; Region: FYDLN_acid 452662005534 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 452662005535 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 452662005536 hinge; other site 452662005537 active site 452662005538 cytidylate kinase; Provisional; Region: cmk; PRK00023 452662005539 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 452662005540 CMP-binding site; other site 452662005541 The sites determining sugar specificity; other site 452662005542 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 452662005543 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 452662005544 RNA binding site [nucleotide binding]; other site 452662005545 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 452662005546 RNA binding site [nucleotide binding]; other site 452662005547 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 452662005548 RNA binding site [nucleotide binding]; other site 452662005549 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec4; cd05689 452662005550 RNA binding site [nucleotide binding]; other site 452662005551 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec5; cd05690 452662005552 RNA binding site [nucleotide binding]; other site 452662005553 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 452662005554 RNA binding site [nucleotide binding]; other site 452662005555 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 452662005556 IHF dimer interface [polypeptide binding]; other site 452662005557 IHF - DNA interface [nucleotide binding]; other site 452662005558 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 452662005559 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 452662005560 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662005561 Glutaminase; Region: Glutaminase; cl00907 452662005562 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 452662005563 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 452662005564 motif 1; other site 452662005565 active site 452662005566 motif 2; other site 452662005567 motif 3; other site 452662005568 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 452662005569 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 452662005570 active site 452662005571 transcriptional activator TtdR; Provisional; Region: PRK09801 452662005572 Helix-turn-helix domains; Region: HTH; cl00088 452662005573 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 452662005574 putative effector binding pocket; other site 452662005575 dimerization interface [polypeptide binding]; other site 452662005576 malic enzyme; Reviewed; Region: PRK12862 452662005577 Malic enzyme, N-terminal domain; Region: malic; pfam00390 452662005578 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 452662005579 putative NAD(P) binding site [chemical binding]; other site 452662005580 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 452662005581 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 452662005582 MFS transport protein AraJ; Provisional; Region: PRK10091 452662005583 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 452662005584 putative substrate translocation pore; other site 452662005585 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 452662005586 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 452662005587 IHF dimer interface [polypeptide binding]; other site 452662005588 IHF - DNA interface [nucleotide binding]; other site 452662005589 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 452662005590 Found in ATP-dependent protease La (LON); Region: LON; smart00464 452662005591 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 452662005592 Walker A motif; other site 452662005593 ATP binding site [chemical binding]; other site 452662005594 Walker B motif; other site 452662005595 arginine finger; other site 452662005596 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 452662005597 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 452662005598 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 452662005599 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 452662005600 Walker A motif; other site 452662005601 ATP binding site [chemical binding]; other site 452662005602 Walker B motif; other site 452662005603 arginine finger; other site 452662005604 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 452662005605 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 452662005606 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 452662005607 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 452662005608 catalytic loop [active] 452662005609 iron binding site [ion binding]; other site 452662005610 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 452662005611 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 452662005612 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 452662005613 catalytic residue [active] 452662005614 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 452662005615 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 452662005616 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 452662005617 catalytic residue [active] 452662005618 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 452662005619 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 452662005620 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 452662005621 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 452662005622 dimer interface [polypeptide binding]; other site 452662005623 active site 452662005624 glycine-pyridoxal phosphate binding site [chemical binding]; other site 452662005625 folate binding site [chemical binding]; other site 452662005626 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 452662005627 ATP cone domain; Region: ATP-cone; pfam03477 452662005628 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 452662005629 GIY-YIG motif/motif A; other site 452662005630 putative active site [active] 452662005631 putative metal binding site [ion binding]; other site 452662005632 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 452662005633 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 452662005634 Chorismate mutase type II; Region: CM_2; cl00693 452662005635 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 452662005636 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 452662005637 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 452662005638 RNA binding surface [nucleotide binding]; other site 452662005639 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 452662005640 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 452662005641 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 452662005642 PA/protease or protease-like domain interface [polypeptide binding]; other site 452662005643 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 452662005644 metal binding site [ion binding]; metal-binding site 452662005645 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 452662005646 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 452662005647 FMN binding site [chemical binding]; other site 452662005648 substrate binding site [chemical binding]; other site 452662005649 putative catalytic residue [active] 452662005650 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662005651 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 452662005652 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662005653 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 452662005654 agmatine deiminase; Region: agmatine_aguA; TIGR03380 452662005655 N-carbamolyputrescine amidase; Region: PLN02747 452662005656 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 452662005657 putative active site; other site 452662005658 catalytic triad [active] 452662005659 putative dimer interface [polypeptide binding]; other site 452662005660 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 452662005661 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 452662005662 Fe-S cluster binding site [ion binding]; other site 452662005663 DNA binding site [nucleotide binding] 452662005664 active site 452662005665 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 452662005666 catalytic center binding site [active] 452662005667 ATP binding site [chemical binding]; other site 452662005668 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 452662005669 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 452662005670 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 452662005671 active site 452662005672 catalytic site [active] 452662005673 glycogen synthase; Provisional; Region: glgA; PRK00654 452662005674 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 452662005675 ADP-binding pocket [chemical binding]; other site 452662005676 homodimer interface [polypeptide binding]; other site 452662005677 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 452662005678 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 452662005679 ligand binding site; other site 452662005680 oligomer interface; other site 452662005681 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 452662005682 dimer interface [polypeptide binding]; other site 452662005683 N-terminal domain interface [polypeptide binding]; other site 452662005684 sulfate 1 binding site; other site 452662005685 glycogen branching enzyme; Provisional; Region: PRK05402 452662005686 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 452662005687 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 452662005688 active site 452662005689 catalytic site [active] 452662005690 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 452662005691 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 452662005692 homodimer interface [polypeptide binding]; other site 452662005693 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 452662005694 active site pocket [active] 452662005695 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 452662005696 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 452662005697 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 452662005698 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 452662005699 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 452662005700 FecR protein; Region: FecR; pfam04773 452662005701 Secretin and TonB N terminus short domain; Region: STN; cl06624 452662005702 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662005703 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 452662005704 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 452662005705 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 452662005706 GatB domain; Region: GatB_Yqey; cl11497 452662005707 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 452662005708 putative active site [active] 452662005709 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 452662005710 indole acetimide hydrolase; Validated; Region: PRK07488 452662005711 Amidase; Region: Amidase; cl11426 452662005712 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 452662005713 Protein of unknown function (DUF3089); Region: DUF3089; pfam11288 452662005714 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 452662005715 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 452662005716 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 452662005717 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 452662005718 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 452662005719 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 452662005720 Chain length determinant protein; Region: Wzz; cl15801 452662005721 Chain length determinant protein; Region: Wzz; cl15801 452662005722 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 452662005723 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 452662005724 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 452662005725 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662005726 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 452662005727 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662005728 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 452662005729 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 452662005730 active site 452662005731 homodimer interface [polypeptide binding]; other site 452662005732 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 452662005733 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662005734 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 452662005735 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662005736 ABC-2 type transporter; Region: ABC2_membrane; cl11417 452662005737 GcrA cell cycle regulator; Region: GcrA; cl11564 452662005738 GcrA cell cycle regulator; Region: GcrA; cl11564 452662005739 OsmC-like protein; Region: OsmC; cl00767 452662005740 Helix-turn-helix domains; Region: HTH; cl00088 452662005741 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 452662005742 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 452662005743 ATP binding site [chemical binding]; other site 452662005744 Mg2+ binding site [ion binding]; other site 452662005745 G-X-G motif; other site 452662005746 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 452662005747 anchoring element; other site 452662005748 dimer interface [polypeptide binding]; other site 452662005749 ATP binding site [chemical binding]; other site 452662005750 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 452662005751 active site 452662005752 putative metal-binding site [ion binding]; other site 452662005753 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 452662005754 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 452662005755 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 452662005756 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662005757 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662005758 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 452662005759 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 452662005760 putative active site [active] 452662005761 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 452662005762 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 452662005763 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662005764 Walker A/P-loop; other site 452662005765 ATP binding site [chemical binding]; other site 452662005766 Q-loop/lid; other site 452662005767 ABC transporter signature motif; other site 452662005768 Walker B; other site 452662005769 D-loop; other site 452662005770 H-loop/switch region; other site 452662005771 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 452662005772 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 452662005773 ligand binding site [chemical binding]; other site 452662005774 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 452662005775 VCBS repeat; Region: VCBS_repeat; TIGR01965 452662005776 VCBS repeat; Region: VCBS_repeat; TIGR01965 452662005777 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 452662005778 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 452662005779 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 452662005780 Tetratricopeptide repeat; Region: TPR_10; pfam13374 452662005781 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 452662005782 Helix-turn-helix domains; Region: HTH; cl00088 452662005783 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 452662005784 dimerization interface [polypeptide binding]; other site 452662005785 Protein of unknown function (DUF525); Region: DUF525; cl01119 452662005786 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 452662005787 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 452662005788 homodimer interface [polypeptide binding]; other site 452662005789 substrate-cofactor binding pocket; other site 452662005790 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452662005791 catalytic residue [active] 452662005792 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 452662005793 tartrate dehydrogenase; Provisional; Region: PRK08194 452662005794 Recombination protein O N terminal; Region: RecO_N; cl15812 452662005795 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 452662005796 Recombination protein O C terminal; Region: RecO_C; pfam02565 452662005797 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 452662005798 Histidine kinase; Region: HisKA_3; pfam07730 452662005799 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 452662005800 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 452662005801 active site 452662005802 phosphorylation site [posttranslational modification] 452662005803 intermolecular recognition site; other site 452662005804 dimerization interface [polypeptide binding]; other site 452662005805 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 452662005806 DNA binding residues [nucleotide binding] 452662005807 dimerization interface [polypeptide binding]; other site 452662005808 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 452662005809 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 452662005810 binding surface 452662005811 TPR motif; other site 452662005812 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 452662005813 binding surface 452662005814 TPR motif; other site 452662005815 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 452662005816 binding surface 452662005817 Tetratricopeptide repeat; Region: TPR_16; pfam13432 452662005818 TPR motif; other site 452662005819 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 452662005820 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 452662005821 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 452662005822 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 452662005823 ATP binding site [chemical binding]; other site 452662005824 Walker A motif; other site 452662005825 hexamer interface [polypeptide binding]; other site 452662005826 Walker B motif; other site 452662005827 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 452662005828 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662005829 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 452662005830 TadE-like protein; Region: TadE; cl10688 452662005831 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 452662005832 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 452662005833 BON domain; Region: BON; cl02771 452662005834 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 452662005835 SAF domain; Region: SAF; cl00555 452662005836 Flp/Fap pilin component; Region: Flp_Fap; cl01585 452662005837 Flp/Fap pilin component; Region: Flp_Fap; cl01585 452662005838 Histidine kinase; Region: HisKA_3; pfam07730 452662005839 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 452662005840 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 452662005841 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 452662005842 GIY-YIG motif/motif A; other site 452662005843 active site 452662005844 catalytic site [active] 452662005845 putative DNA binding site [nucleotide binding]; other site 452662005846 metal binding site [ion binding]; metal-binding site 452662005847 UvrB/uvrC motif; Region: UVR; pfam02151 452662005848 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 452662005849 Plant ATP synthase F0; Region: YMF19; cl07975 452662005850 Plant ATP synthase F0; Region: YMF19; cl07975 452662005851 ATP synthase subunit C; Region: ATP-synt_C; cl00466 452662005852 ATP synthase A chain; Region: ATP-synt_A; cl00413 452662005853 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 452662005854 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 452662005855 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 452662005856 Dicarboxylate transport; Region: DctA-YdbH; cl14674 452662005857 hypothetical protein; Reviewed; Region: PRK00024 452662005858 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 452662005859 MPN+ (JAMM) motif; other site 452662005860 Zinc-binding site [ion binding]; other site 452662005861 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 452662005862 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 452662005863 substrate binding site [chemical binding]; other site 452662005864 ATP binding site [chemical binding]; other site 452662005865 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 452662005866 PAS domain; Region: PAS_9; pfam13426 452662005867 putative active site [active] 452662005868 heme pocket [chemical binding]; other site 452662005869 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 452662005870 dimer interface [polypeptide binding]; other site 452662005871 phosphorylation site [posttranslational modification] 452662005872 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 452662005873 ATP binding site [chemical binding]; other site 452662005874 G-X-G motif; other site 452662005875 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 452662005876 active site 452662005877 phosphorylation site [posttranslational modification] 452662005878 intermolecular recognition site; other site 452662005879 dimerization interface [polypeptide binding]; other site 452662005880 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 452662005881 serine O-acetyltransferase; Region: cysE; TIGR01172 452662005882 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 452662005883 trimer interface [polypeptide binding]; other site 452662005884 active site 452662005885 substrate binding site [chemical binding]; other site 452662005886 CoA binding site [chemical binding]; other site 452662005887 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 452662005888 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 452662005889 Transcriptional regulator [Transcription]; Region: LysR; COG0583 452662005890 Helix-turn-helix domains; Region: HTH; cl00088 452662005891 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 452662005892 dimerization interface [polypeptide binding]; other site 452662005893 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 452662005894 MoaE homodimer interface [polypeptide binding]; other site 452662005895 MoaD interaction [polypeptide binding]; other site 452662005896 active site residues [active] 452662005897 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 452662005898 MoaE interaction surface [polypeptide binding]; other site 452662005899 MoeB interaction surface [polypeptide binding]; other site 452662005900 thiocarboxylated glycine; other site 452662005901 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 452662005902 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 452662005903 Transglycosylase; Region: Transgly; cl07896 452662005904 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 452662005905 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 452662005906 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 452662005907 trimerization site [polypeptide binding]; other site 452662005908 active site 452662005909 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 452662005910 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 452662005911 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662005912 Protein of unknown function (DUF423); Region: DUF423; cl01008 452662005913 Helix-turn-helix domains; Region: HTH; cl00088 452662005914 metal binding site 2 [ion binding]; metal-binding site 452662005915 putative DNA binding helix; other site 452662005916 metal binding site 1 [ion binding]; metal-binding site 452662005917 dimer interface [polypeptide binding]; other site 452662005918 structural Zn2+ binding site [ion binding]; other site 452662005919 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 452662005920 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 452662005921 TPP-binding site; other site 452662005922 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 452662005923 PYR/PP interface [polypeptide binding]; other site 452662005924 dimer interface [polypeptide binding]; other site 452662005925 TPP binding site [chemical binding]; other site 452662005926 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 452662005927 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_5; cd08898 452662005928 putative hydrophobic ligand binding site [chemical binding]; other site 452662005929 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 452662005930 dimerization interface [polypeptide binding]; other site 452662005931 putative DNA binding site [nucleotide binding]; other site 452662005932 putative Zn2+ binding site [ion binding]; other site 452662005933 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 452662005934 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 452662005935 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 452662005936 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 452662005937 active site 452662005938 HIGH motif; other site 452662005939 nucleotide binding site [chemical binding]; other site 452662005940 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 452662005941 active site 452662005942 KMSKS motif; other site 452662005943 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 452662005944 tRNA binding surface [nucleotide binding]; other site 452662005945 anticodon binding site; other site 452662005946 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 452662005947 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 452662005948 active site 452662005949 Riboflavin kinase; Region: Flavokinase; cl03312 452662005950 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 452662005951 folate binding site [chemical binding]; other site 452662005952 NADP+ binding site [chemical binding]; other site 452662005953 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 452662005954 ATP-grasp domain; Region: ATP-grasp_4; cl03087 452662005955 AIR carboxylase; Region: AIRC; cl00310 452662005956 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 452662005957 catalytic core [active] 452662005958 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 452662005959 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 452662005960 tandem repeat interface [polypeptide binding]; other site 452662005961 oligomer interface [polypeptide binding]; other site 452662005962 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 452662005963 active site residues [active] 452662005964 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 452662005965 tandem repeat interface [polypeptide binding]; other site 452662005966 oligomer interface [polypeptide binding]; other site 452662005967 active site residues [active] 452662005968 ribonuclease R; Region: RNase_R; TIGR02063 452662005969 RNB domain; Region: RNB; pfam00773 452662005970 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 452662005971 RNA binding site [nucleotide binding]; other site 452662005972 MatE; Region: MatE; cl10513 452662005973 MatE; Region: MatE; cl10513 452662005974 Protein of unknown function (DUF808); Region: DUF808; cl01002 452662005975 Predicted membrane protein [Function unknown]; Region: COG2860 452662005976 UPF0126 domain; Region: UPF0126; pfam03458 452662005977 UPF0126 domain; Region: UPF0126; pfam03458 452662005978 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 452662005979 catalytic residues [active] 452662005980 dimer interface [polypeptide binding]; other site 452662005981 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 452662005982 ABC transporter ATPase component; Reviewed; Region: PRK11147 452662005983 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 452662005984 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 452662005985 Protein of unknown function (DUF541); Region: SIMPL; cl01077 452662005986 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 452662005987 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 452662005988 active site 452662005989 phosphorylation site [posttranslational modification] 452662005990 intermolecular recognition site; other site 452662005991 dimerization interface [polypeptide binding]; other site 452662005992 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 452662005993 DNA binding site [nucleotide binding] 452662005994 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 452662005995 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 452662005996 ATP binding site [chemical binding]; other site 452662005997 Mg2+ binding site [ion binding]; other site 452662005998 G-X-G motif; other site 452662005999 Protein of unknown function (DUF454); Region: DUF454; cl01063 452662006000 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 452662006001 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 452662006002 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 452662006003 putative C-terminal domain interface [polypeptide binding]; other site 452662006004 putative GSH binding site (G-site) [chemical binding]; other site 452662006005 putative dimer interface [polypeptide binding]; other site 452662006006 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 452662006007 putative N-terminal domain interface [polypeptide binding]; other site 452662006008 putative dimer interface [polypeptide binding]; other site 452662006009 putative substrate binding pocket (H-site) [chemical binding]; other site 452662006010 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 452662006011 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 452662006012 catalytic triad [active] 452662006013 aconitate hydratase; Validated; Region: PRK09277 452662006014 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 452662006015 substrate binding site [chemical binding]; other site 452662006016 ligand binding site [chemical binding]; other site 452662006017 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 452662006018 substrate binding site [chemical binding]; other site 452662006019 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 452662006020 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 452662006021 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 452662006022 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 452662006023 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 452662006024 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 452662006025 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662006026 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 452662006027 Bacterial SH3 domain; Region: SH3_3; cl02551 452662006028 Bacterial SH3 domain; Region: SH3_3; cl02551 452662006029 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 452662006030 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 452662006031 putative substrate translocation pore; other site 452662006032 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 452662006033 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 452662006034 putative FMN binding site [chemical binding]; other site 452662006035 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 452662006036 DNA-binding site [nucleotide binding]; DNA binding site 452662006037 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 452662006038 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 452662006039 active site 452662006040 phosphorylation site [posttranslational modification] 452662006041 intermolecular recognition site; other site 452662006042 dimerization interface [polypeptide binding]; other site 452662006043 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 452662006044 Walker A motif; other site 452662006045 ATP binding site [chemical binding]; other site 452662006046 Walker B motif; other site 452662006047 arginine finger; other site 452662006048 Helix-turn-helix domains; Region: HTH; cl00088 452662006049 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 452662006050 GAF domain; Region: GAF; cl15785 452662006051 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 452662006052 ATP binding site [chemical binding]; other site 452662006053 Mg2+ binding site [ion binding]; other site 452662006054 G-X-G motif; other site 452662006055 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 452662006056 Bacterial sugar transferase; Region: Bac_transf; cl00939 452662006057 RNA polymerase sigma factor; Provisional; Region: PRK12547 452662006058 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 452662006059 two-component response regulator; Provisional; Region: PRK09191 452662006060 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 452662006061 active site 452662006062 phosphorylation site [posttranslational modification] 452662006063 intermolecular recognition site; other site 452662006064 dimerization interface [polypeptide binding]; other site 452662006065 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 452662006066 Histidine kinase; Region: HisKA_2; cl06527 452662006067 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 452662006068 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 452662006069 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 452662006070 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 452662006071 active site 452662006072 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 452662006073 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 452662006074 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 452662006075 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 452662006076 Uncharacterized conserved protein [Function unknown]; Region: COG2308 452662006077 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 452662006078 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 452662006079 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 452662006080 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 452662006081 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 452662006082 general secretion pathway protein L; Region: typeII_sec_gspL; TIGR01709 452662006083 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 452662006084 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 452662006085 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 452662006086 general secretion pathway protein I; Region: gspI; TIGR01707 452662006087 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 452662006088 general secretion pathway protein H; Region: typeII_sec_gspH; TIGR01708 452662006089 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 452662006090 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 452662006091 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 452662006092 general secretion pathway protein F; Region: GspF; TIGR02120 452662006093 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 452662006094 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 452662006095 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 452662006096 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 452662006097 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 452662006098 Walker A motif; other site 452662006099 ATP binding site [chemical binding]; other site 452662006100 Walker B motif; other site 452662006101 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 452662006102 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 452662006103 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 452662006104 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 452662006105 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 452662006106 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 452662006107 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 452662006108 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 452662006109 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 452662006110 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662006111 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662006112 C2 domain; Region: C2; cl14603 452662006113 NRDE protein; Region: NRDE; cl01315 452662006114 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 452662006115 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 452662006116 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 452662006117 ATP binding site [chemical binding]; other site 452662006118 Mg2+ binding site [ion binding]; other site 452662006119 G-X-G motif; other site 452662006120 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; cl15419 452662006121 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 452662006122 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 452662006123 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 452662006124 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 452662006125 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 452662006126 nudix motif; other site 452662006127 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 452662006128 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 452662006129 NAD(P) binding site [chemical binding]; other site 452662006130 catalytic residues [active] 452662006131 choline dehydrogenase; Validated; Region: PRK02106 452662006132 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662006133 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 452662006134 Transcriptional regulator [Transcription]; Region: IclR; COG1414 452662006135 Helix-turn-helix domains; Region: HTH; cl00088 452662006136 Bacterial transcriptional regulator; Region: IclR; pfam01614 452662006137 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 452662006138 Major Facilitator Superfamily; Region: MFS_1; pfam07690 452662006139 putative substrate translocation pore; other site 452662006140 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 452662006141 active site 452662006142 metal binding site [ion binding]; metal-binding site 452662006143 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 452662006144 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 452662006145 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 452662006146 N-terminal plug; other site 452662006147 ligand-binding site [chemical binding]; other site 452662006148 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 452662006149 active site 452662006150 Transcriptional regulators [Transcription]; Region: GntR; COG1802 452662006151 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 452662006152 DNA-binding site [nucleotide binding]; DNA binding site 452662006153 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 452662006154 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 452662006155 Uncharacterized protein conserved in bacteria (DUF2171); Region: DUF2171; cl01558 452662006156 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 452662006157 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 452662006158 putative active site [active] 452662006159 putative catalytic site [active] 452662006160 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 452662006161 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 452662006162 ATP-grasp domain; Region: ATP-grasp_4; cl03087 452662006163 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 452662006164 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 452662006165 carboxyltransferase (CT) interaction site; other site 452662006166 biotinylation site [posttranslational modification]; other site 452662006167 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 452662006168 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 452662006169 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 452662006170 Protein of unknown function, DUF486; Region: DUF486; cl01236 452662006171 isovaleryl-CoA dehydrogenase; Region: PLN02519 452662006172 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 452662006173 substrate binding site [chemical binding]; other site 452662006174 FAD binding site [chemical binding]; other site 452662006175 catalytic base [active] 452662006176 Transcriptional regulator [Transcription]; Region: LysR; COG0583 452662006177 Helix-turn-helix domains; Region: HTH; cl00088 452662006178 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 452662006179 dimerization interface [polypeptide binding]; other site 452662006180 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 452662006181 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 452662006182 S-adenosylmethionine binding site [chemical binding]; other site 452662006183 Predicted membrane protein [Function unknown]; Region: COG2311 452662006184 Protein of unknown function (DUF418); Region: DUF418; cl12135 452662006185 Protein of unknown function (DUF418); Region: DUF418; cl12135 452662006186 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 452662006187 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 452662006188 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 452662006189 heme binding site [chemical binding]; other site 452662006190 ferroxidase pore; other site 452662006191 ferroxidase diiron center [ion binding]; other site 452662006192 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 452662006193 active site 452662006194 8-oxo-dGMP binding site [chemical binding]; other site 452662006195 nudix motif; other site 452662006196 metal binding site [ion binding]; metal-binding site 452662006197 Flp/Fap pilin component; Region: Flp_Fap; cl01585 452662006198 Flp/Fap pilin component; Region: Flp_Fap; cl01585 452662006199 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 452662006200 Peptidase family M48; Region: Peptidase_M48; cl12018 452662006201 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 452662006202 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 452662006203 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 452662006204 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 452662006205 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 452662006206 active site 452662006207 DNA binding site [nucleotide binding] 452662006208 Int/Topo IB signature motif; other site 452662006209 shikimate kinase; Provisional; Region: PRK13946 452662006210 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 452662006211 ADP binding site [chemical binding]; other site 452662006212 magnesium binding site [ion binding]; other site 452662006213 putative shikimate binding site; other site 452662006214 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 452662006215 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 452662006216 active site 452662006217 dimer interface [polypeptide binding]; other site 452662006218 metal binding site [ion binding]; metal-binding site 452662006219 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 452662006220 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 452662006221 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 452662006222 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 452662006223 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 452662006224 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 452662006225 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 452662006226 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 452662006227 Surface antigen; Region: Bac_surface_Ag; cl03097 452662006228 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 452662006229 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 452662006230 active site 452662006231 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 452662006232 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 452662006233 putative substrate binding region [chemical binding]; other site 452662006234 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 452662006235 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 452662006236 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 452662006237 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 452662006238 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 452662006239 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 452662006240 catalytic residue [active] 452662006241 putative FPP diphosphate binding site; other site 452662006242 putative FPP binding hydrophobic cleft; other site 452662006243 dimer interface [polypeptide binding]; other site 452662006244 putative IPP diphosphate binding site; other site 452662006245 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 452662006246 hinge region; other site 452662006247 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 452662006248 putative nucleotide binding site [chemical binding]; other site 452662006249 uridine monophosphate binding site [chemical binding]; other site 452662006250 homohexameric interface [polypeptide binding]; other site 452662006251 elongation factor Ts; Provisional; Region: tsf; PRK09377 452662006252 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 452662006253 Elongation factor TS; Region: EF_TS; pfam00889 452662006254 Elongation factor TS; Region: EF_TS; pfam00889 452662006255 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 452662006256 rRNA interaction site [nucleotide binding]; other site 452662006257 S8 interaction site; other site 452662006258 putative laminin-1 binding site; other site 452662006259 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 452662006260 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 452662006261 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 452662006262 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 452662006263 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 452662006264 Coenzyme A binding pocket [chemical binding]; other site 452662006265 Predicted amidohydrolase [General function prediction only]; Region: COG0388 452662006266 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 452662006267 putative active site [active] 452662006268 catalytic triad [active] 452662006269 putative dimer interface [polypeptide binding]; other site 452662006270 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 452662006271 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 452662006272 glutaminase active site [active] 452662006273 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 452662006274 dimer interface [polypeptide binding]; other site 452662006275 active site 452662006276 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 452662006277 dimer interface [polypeptide binding]; other site 452662006278 active site 452662006279 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 452662006280 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 452662006281 putative active site [active] 452662006282 putative metal binding site [ion binding]; other site 452662006283 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 452662006284 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 452662006285 Substrate binding site; other site 452662006286 Mg++ binding site; other site 452662006287 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 452662006288 active site 452662006289 substrate binding site [chemical binding]; other site 452662006290 CoA binding site [chemical binding]; other site 452662006291 phosphoglycolate phosphatase; Provisional; Region: PRK13222 452662006292 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 452662006293 motif II; other site 452662006294 enoyl-CoA hydratase; Provisional; Region: PRK06127 452662006295 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 452662006296 substrate binding site [chemical binding]; other site 452662006297 oxyanion hole (OAH) forming residues; other site 452662006298 trimer interface [polypeptide binding]; other site 452662006299 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 452662006300 metal binding site [ion binding]; metal-binding site 452662006301 active site 452662006302 I-site; other site 452662006303 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 452662006304 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662006305 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 452662006306 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 452662006307 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 452662006308 putative active site [active] 452662006309 GIY-YIG motif/motif A; other site 452662006310 putative metal binding site [ion binding]; other site 452662006311 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 452662006312 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 452662006313 E3 interaction surface; other site 452662006314 lipoyl attachment site [posttranslational modification]; other site 452662006315 e3 binding domain; Region: E3_binding; pfam02817 452662006316 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 452662006317 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 452662006318 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 452662006319 TPP-binding site [chemical binding]; other site 452662006320 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 452662006321 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 452662006322 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662006323 CoA-ligase; Region: Ligase_CoA; cl02894 452662006324 malate dehydrogenase; Reviewed; Region: PRK06223 452662006325 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 452662006326 NAD(P) binding site [chemical binding]; other site 452662006327 dimer interface [polypeptide binding]; other site 452662006328 tetramer (dimer of dimers) interface [polypeptide binding]; other site 452662006329 substrate binding site [chemical binding]; other site 452662006330 Predicted ATPase [General function prediction only]; Region: COG1485 452662006331 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 452662006332 CoenzymeA binding site [chemical binding]; other site 452662006333 subunit interaction site [polypeptide binding]; other site 452662006334 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 452662006335 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 452662006336 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 452662006337 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 452662006338 putative ADP-binding pocket [chemical binding]; other site 452662006339 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 452662006340 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 452662006341 nucleotide binding site/active site [active] 452662006342 HIT family signature motif; other site 452662006343 catalytic residue [active] 452662006344 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 452662006345 active site 452662006346 metal-binding site 452662006347 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 452662006348 MatE; Region: MatE; cl10513 452662006349 FAD dependent oxidoreductase; Region: DAO; pfam01266 452662006350 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 452662006351 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662006352 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 452662006353 SAF domain; Region: SAF; cl00555 452662006354 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 452662006355 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 452662006356 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 452662006357 Type IV pili component [Cell motility and secretion]; Region: COG5461; cl02279 452662006358 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 452662006359 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 452662006360 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 452662006361 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 452662006362 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 452662006363 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 452662006364 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 452662006365 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 452662006366 active site 452662006367 catalytic residues [active] 452662006368 metal binding site [ion binding]; metal-binding site 452662006369 recombination protein RecR; Reviewed; Region: recR; PRK00076 452662006370 RecR protein; Region: RecR; pfam02132 452662006371 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 452662006372 putative active site [active] 452662006373 putative metal-binding site [ion binding]; other site 452662006374 tetramer interface [polypeptide binding]; other site 452662006375 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 452662006376 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 452662006377 putative active site [active] 452662006378 substrate binding site [chemical binding]; other site 452662006379 putative cosubstrate binding site; other site 452662006380 catalytic site [active] 452662006381 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 452662006382 substrate binding site [chemical binding]; other site 452662006383 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 452662006384 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 452662006385 dimerization interface 3.5A [polypeptide binding]; other site 452662006386 active site 452662006387 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 452662006388 OpgC protein; Region: OpgC_C; cl00792 452662006389 Acyltransferase family; Region: Acyl_transf_3; pfam01757 452662006390 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 452662006391 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 452662006392 nucleophile elbow; other site 452662006393 Patatin phospholipase; Region: DUF3734; pfam12536 452662006394 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662006395 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 452662006396 NAD(P) binding site [chemical binding]; other site 452662006397 active site 452662006398 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 452662006399 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 452662006400 metal binding site [ion binding]; metal-binding site 452662006401 putative dimer interface [polypeptide binding]; other site 452662006402 FtsH Extracellular; Region: FtsH_ext; pfam06480 452662006403 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 452662006404 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 452662006405 Walker A motif; other site 452662006406 ATP binding site [chemical binding]; other site 452662006407 Walker B motif; other site 452662006408 arginine finger; other site 452662006409 Peptidase family M41; Region: Peptidase_M41; pfam01434 452662006410 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 452662006411 Ligand Binding Site [chemical binding]; other site 452662006412 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 452662006413 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 452662006414 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 452662006415 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 452662006416 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 452662006417 GAF domain; Region: GAF; cl15785 452662006418 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 452662006419 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 452662006420 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 452662006421 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 452662006422 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 452662006423 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452662006424 homodimer interface [polypeptide binding]; other site 452662006425 catalytic residue [active] 452662006426 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 452662006427 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 452662006428 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452662006429 homodimer interface [polypeptide binding]; other site 452662006430 catalytic residue [active] 452662006431 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 452662006432 hydrophobic ligand binding site; other site 452662006433 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 452662006434 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 452662006435 dimer interface [polypeptide binding]; other site 452662006436 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 452662006437 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 452662006438 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 452662006439 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 452662006440 Protein of unknown function (DUF1428); Region: DUF1428; cl02319 452662006441 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 452662006442 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662006443 NAD(P) binding site [chemical binding]; other site 452662006444 active site 452662006445 Helix-turn-helix domains; Region: HTH; cl00088 452662006446 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 452662006447 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 452662006448 FMN binding site [chemical binding]; other site 452662006449 substrate binding site [chemical binding]; other site 452662006450 putative catalytic residue [active] 452662006451 aspartate kinase; Reviewed; Region: PRK06635 452662006452 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 452662006453 putative nucleotide binding site [chemical binding]; other site 452662006454 putative catalytic residues [active] 452662006455 putative Mg ion binding site [ion binding]; other site 452662006456 putative aspartate binding site [chemical binding]; other site 452662006457 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 452662006458 putative allosteric regulatory site; other site 452662006459 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 452662006460 putative allosteric regulatory residue; other site 452662006461 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 452662006462 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662006463 Protein of unknown function (DUF419); Region: DUF419; cl15265 452662006464 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 452662006465 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 452662006466 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 452662006467 OsmC-like protein; Region: OsmC; cl00767 452662006468 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 452662006469 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662006470 Uncharacterized small protein (DUF2292); Region: DUF2292; cl02371 452662006471 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 452662006472 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 452662006473 N-terminal plug; other site 452662006474 ligand-binding site [chemical binding]; other site 452662006475 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 452662006476 oligomerization interface [polypeptide binding]; other site 452662006477 active site 452662006478 metal binding site [ion binding]; metal-binding site 452662006479 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 452662006480 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 452662006481 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 452662006482 Trp docking motif [polypeptide binding]; other site 452662006483 active site 452662006484 PQQ-like domain; Region: PQQ_2; pfam13360 452662006485 GTP-binding protein Der; Reviewed; Region: PRK00093 452662006486 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 452662006487 G1 box; other site 452662006488 GTP/Mg2+ binding site [chemical binding]; other site 452662006489 Switch I region; other site 452662006490 G2 box; other site 452662006491 Switch II region; other site 452662006492 G3 box; other site 452662006493 G4 box; other site 452662006494 G5 box; other site 452662006495 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 452662006496 G1 box; other site 452662006497 GTP/Mg2+ binding site [chemical binding]; other site 452662006498 Switch I region; other site 452662006499 G2 box; other site 452662006500 G3 box; other site 452662006501 Switch II region; other site 452662006502 G4 box; other site 452662006503 G5 box; other site 452662006504 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 452662006505 CPxP motif; other site 452662006506 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 452662006507 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 452662006508 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 452662006509 Acyltransferase family; Region: Acyl_transf_3; pfam01757 452662006510 Domain of unknown function DUF87; Region: DUF87; pfam01935 452662006511 AAA-like domain; Region: AAA_10; pfam12846 452662006512 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 452662006513 MatE; Region: MatE; cl10513 452662006514 MatE; Region: MatE; cl10513 452662006515 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 452662006516 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 452662006517 active site 452662006518 HIGH motif; other site 452662006519 nucleotide binding site [chemical binding]; other site 452662006520 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 452662006521 active site 452662006522 KMSKS motif; other site 452662006523 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 452662006524 tRNA binding surface [nucleotide binding]; other site 452662006525 anticodon binding site; other site 452662006526 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 452662006527 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 452662006528 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662006529 Protein of unknown function (DUF2497); Region: DUF2497; cl11534 452662006530 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 452662006531 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662006532 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 452662006533 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 452662006534 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 452662006535 active site 452662006536 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662006537 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662006538 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662006539 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 452662006540 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662006541 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 452662006542 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 452662006543 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 452662006544 active site 452662006545 Muconolactone delta-isomerase; Region: MIase; cl01992 452662006546 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 452662006547 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 452662006548 octamer interface [polypeptide binding]; other site 452662006549 active site 452662006550 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 452662006551 Helix-turn-helix domains; Region: HTH; cl00088 452662006552 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 452662006553 dimerization interface [polypeptide binding]; other site 452662006554 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 452662006555 iron-sulfur cluster [ion binding]; other site 452662006556 [2Fe-2S] cluster binding site [ion binding]; other site 452662006557 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 452662006558 putative alpha subunit interface [polypeptide binding]; other site 452662006559 putative active site [active] 452662006560 putative substrate binding site [chemical binding]; other site 452662006561 Fe binding site [ion binding]; other site 452662006562 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 452662006563 inter-subunit interface; other site 452662006564 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 452662006565 [2Fe-2S] cluster binding site [ion binding]; other site 452662006566 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 452662006567 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 452662006568 Helix-turn-helix domain; Region: HTH_18; pfam12833 452662006569 Transposase domain (DUF772); Region: DUF772; cl15789 452662006570 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 452662006571 catalytic triad [active] 452662006572 dimer interface [polypeptide binding]; other site 452662006573 conserved cis-peptide bond; other site 452662006574 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662006575 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 452662006576 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 452662006577 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 452662006578 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 452662006579 active site 452662006580 DoxX; Region: DoxX; cl00976 452662006581 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 452662006582 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 452662006583 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 452662006584 Transcriptional regulator [Transcription]; Region: LysR; COG0583 452662006585 Helix-turn-helix domains; Region: HTH; cl00088 452662006586 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 452662006587 dimerization interface [polypeptide binding]; other site 452662006588 Cupin domain; Region: Cupin_2; cl09118 452662006589 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 452662006590 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 452662006591 N-terminal plug; other site 452662006592 ligand-binding site [chemical binding]; other site 452662006593 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 452662006594 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 452662006595 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 452662006596 dimerization interface [polypeptide binding]; other site 452662006597 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 452662006598 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 452662006599 ATP binding site [chemical binding]; other site 452662006600 Mg2+ binding site [ion binding]; other site 452662006601 G-X-G motif; other site 452662006602 osmolarity response regulator; Provisional; Region: ompR; PRK09468 452662006603 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 452662006604 active site 452662006605 phosphorylation site [posttranslational modification] 452662006606 intermolecular recognition site; other site 452662006607 dimerization interface [polypeptide binding]; other site 452662006608 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 452662006609 DNA binding site [nucleotide binding] 452662006610 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 452662006611 EF-hand domain pair; Region: EF_hand_5; pfam13499 452662006612 Ca2+ binding site [ion binding]; other site 452662006613 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 452662006614 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 452662006615 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 452662006616 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 452662006617 putative C-terminal domain interface [polypeptide binding]; other site 452662006618 putative GSH binding site (G-site) [chemical binding]; other site 452662006619 putative dimer interface [polypeptide binding]; other site 452662006620 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 452662006621 putative substrate binding pocket (H-site) [chemical binding]; other site 452662006622 putative N-terminal domain interface [polypeptide binding]; other site 452662006623 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 452662006624 active site 452662006625 multimer interface [polypeptide binding]; other site 452662006626 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 452662006627 multifunctional aminopeptidase A; Provisional; Region: PRK00913 452662006628 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 452662006629 interface (dimer of trimers) [polypeptide binding]; other site 452662006630 Substrate-binding/catalytic site; other site 452662006631 Zn-binding sites [ion binding]; other site 452662006632 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 452662006633 OstA-like protein; Region: OstA; cl00844 452662006634 Organic solvent tolerance protein; Region: OstA_C; pfam04453 452662006635 SurA N-terminal domain; Region: SurA_N_3; cl07813 452662006636 PPIC-type PPIASE domain; Region: Rotamase; cl08278 452662006637 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 452662006638 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 452662006639 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662006640 Siphovirus protein of unknown function (DUF859); Region: DUF859; pfam05895 452662006641 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 452662006642 binding surface 452662006643 Tetratricopeptide repeat; Region: TPR_16; pfam13432 452662006644 TPR motif; other site 452662006645 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 452662006646 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; cl15754 452662006647 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 452662006648 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 452662006649 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 452662006650 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 452662006651 active site 452662006652 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 452662006653 aspartate racemase; Region: asp_race; TIGR00035 452662006654 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 452662006655 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 452662006656 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 452662006657 active site 452662006658 phosphorylation site [posttranslational modification] 452662006659 intermolecular recognition site; other site 452662006660 dimerization interface [polypeptide binding]; other site 452662006661 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 452662006662 Walker A motif; other site 452662006663 ATP binding site [chemical binding]; other site 452662006664 Walker B motif; other site 452662006665 arginine finger; other site 452662006666 Helix-turn-helix domains; Region: HTH; cl00088 452662006667 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 452662006668 active site 452662006669 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 452662006670 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662006671 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 452662006672 Membrane fusogenic activity; Region: BMFP; cl01115 452662006673 TspO/MBR family; Region: TspO_MBR; cl01379 452662006674 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 452662006675 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 452662006676 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662006677 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 452662006678 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 452662006679 RNA binding surface [nucleotide binding]; other site 452662006680 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; cl15754 452662006681 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 452662006682 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 452662006683 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 452662006684 DsbD alpha interface [polypeptide binding]; other site 452662006685 catalytic residues [active] 452662006686 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 452662006687 Sulfatase; Region: Sulfatase; cl10460 452662006688 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 452662006689 Helix-turn-helix domains; Region: HTH; cl00088 452662006690 serine O-acetyltransferase; Region: cysE; TIGR01172 452662006691 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 452662006692 trimer interface [polypeptide binding]; other site 452662006693 active site 452662006694 substrate binding site [chemical binding]; other site 452662006695 CoA binding site [chemical binding]; other site 452662006696 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 452662006697 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 452662006698 dimer interface [polypeptide binding]; other site 452662006699 phosphorylation site [posttranslational modification] 452662006700 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 452662006701 ATP binding site [chemical binding]; other site 452662006702 Mg2+ binding site [ion binding]; other site 452662006703 G-X-G motif; other site 452662006704 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 452662006705 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 452662006706 active site 452662006707 phosphorylation site [posttranslational modification] 452662006708 intermolecular recognition site; other site 452662006709 dimerization interface [polypeptide binding]; other site 452662006710 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 452662006711 DNA binding site [nucleotide binding] 452662006712 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 452662006713 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 452662006714 Sulfate transporter family; Region: Sulfate_transp; cl15842 452662006715 Sulfate transporter family; Region: Sulfate_transp; cl15842 452662006716 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 452662006717 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 452662006718 active site clefts [active] 452662006719 zinc binding site [ion binding]; other site 452662006720 dimer interface [polypeptide binding]; other site 452662006721 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 452662006722 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 452662006723 active site 452662006724 phosphorylation site [posttranslational modification] 452662006725 intermolecular recognition site; other site 452662006726 dimerization interface [polypeptide binding]; other site 452662006727 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 452662006728 DNA binding site [nucleotide binding] 452662006729 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 452662006730 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 452662006731 putative ADP-binding pocket [chemical binding]; other site 452662006732 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 452662006733 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 452662006734 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662006735 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 452662006736 NAD(P) binding site [chemical binding]; other site 452662006737 active site 452662006738 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 452662006739 putative metal binding residues [ion binding]; other site 452662006740 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 452662006741 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 452662006742 Beta-Casp domain; Region: Beta-Casp; cl12567 452662006743 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 452662006744 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 452662006745 thymidine phosphorylase; Provisional; Region: PRK04350 452662006746 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 452662006747 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 452662006748 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 452662006749 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK07199 452662006750 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 452662006751 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 452662006752 active site 452662006753 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 452662006754 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 452662006755 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 452662006756 putative dimer interface [polypeptide binding]; other site 452662006757 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 452662006758 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662006759 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 452662006760 FtsX-like permease family; Region: FtsX; cl15850 452662006761 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 452662006762 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 452662006763 Walker A/P-loop; other site 452662006764 ATP binding site [chemical binding]; other site 452662006765 Q-loop/lid; other site 452662006766 ABC transporter signature motif; other site 452662006767 Walker B; other site 452662006768 D-loop; other site 452662006769 H-loop/switch region; other site 452662006770 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 452662006771 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 452662006772 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 452662006773 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 452662006774 Ion channel; Region: Ion_trans_2; cl11596 452662006775 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 452662006776 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 452662006777 ParB-like nuclease domain; Region: ParBc; cl02129 452662006778 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662006779 Lamin Tail Domain; Region: LTD; pfam00932 452662006780 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 452662006781 Transposase domain (DUF772); Region: DUF772; cl15789 452662006782 Transposase domain (DUF772); Region: DUF772; cl15789 452662006783 Excalibur calcium-binding domain; Region: Excalibur; cl05460 452662006784 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 452662006785 Transposase domain (DUF772); Region: DUF772; cl15789 452662006786 Transposase domain (DUF772); Region: DUF772; cl15789 452662006787 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 452662006788 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 452662006789 N-terminal plug; other site 452662006790 ligand-binding site [chemical binding]; other site 452662006791 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 452662006792 DNA binding residues [nucleotide binding] 452662006793 dimerization interface [polypeptide binding]; other site 452662006794 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 452662006795 MPN+ (JAMM) motif; other site 452662006796 Zinc-binding site [ion binding]; other site 452662006797 Cyanate lyase [Inorganic ion transport and metabolism]; Region: CynS; COG1513 452662006798 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 452662006799 Catalytic site [active] 452662006800 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 452662006801 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 452662006802 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 452662006803 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 452662006804 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 452662006805 Family description; Region: UvrD_C_2; cl15862 452662006806 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 452662006807 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 452662006808 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 452662006809 catalytic residues [active] 452662006810 catalytic nucleophile [active] 452662006811 Presynaptic Site I dimer interface [polypeptide binding]; other site 452662006812 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 452662006813 Synaptic Flat tetramer interface [polypeptide binding]; other site 452662006814 Synaptic Site I dimer interface [polypeptide binding]; other site 452662006815 DNA binding site [nucleotide binding] 452662006816 Recombinase; Region: Recombinase; pfam07508 452662006817 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 452662006818 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 452662006819 Predicted amidohydrolase [General function prediction only]; Region: COG0388 452662006820 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 452662006821 putative active site [active] 452662006822 catalytic triad [active] 452662006823 dimer interface [polypeptide binding]; other site 452662006824 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 452662006825 GSH binding site [chemical binding]; other site 452662006826 catalytic residues [active] 452662006827 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 452662006828 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662006829 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 452662006830 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 452662006831 classical (c) SDRs; Region: SDR_c; cd05233 452662006832 NAD(P) binding site [chemical binding]; other site 452662006833 active site 452662006834 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 452662006835 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 452662006836 NAD binding site [chemical binding]; other site 452662006837 catalytic Zn binding site [ion binding]; other site 452662006838 structural Zn binding site [ion binding]; other site 452662006839 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 452662006840 putative hydrophobic ligand binding site [chemical binding]; other site 452662006841 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 452662006842 heat shock protein 90; Provisional; Region: PRK05218 452662006843 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 452662006844 ATP binding site [chemical binding]; other site 452662006845 Mg2+ binding site [ion binding]; other site 452662006846 G-X-G motif; other site 452662006847 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 452662006848 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 452662006849 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 452662006850 homoserine O-succinyltransferase; Provisional; Region: PRK05368 452662006851 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 452662006852 proposed active site lysine [active] 452662006853 conserved cys residue [active] 452662006854 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 452662006855 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 452662006856 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 452662006857 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 452662006858 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 452662006859 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 452662006860 Fatty acid desaturase; Region: FA_desaturase; pfam00487 452662006861 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 452662006862 general secretion pathway protein F; Region: GspF; TIGR02120 452662006863 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 452662006864 putative lipid kinase; Reviewed; Region: PRK13057 452662006865 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 452662006866 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 452662006867 putative active site [active] 452662006868 putative metal binding site [ion binding]; other site 452662006869 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 452662006870 putative catalytic site [active] 452662006871 putative phosphate binding site [ion binding]; other site 452662006872 active site 452662006873 metal binding site A [ion binding]; metal-binding site 452662006874 DNA binding site [nucleotide binding] 452662006875 putative AP binding site [nucleotide binding]; other site 452662006876 putative metal binding site B [ion binding]; other site 452662006877 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 452662006878 Peptidase family M23; Region: Peptidase_M23; pfam01551 452662006879 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 452662006880 dinuclear metal binding motif [ion binding]; other site 452662006881 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 452662006882 catalytic triad [active] 452662006883 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 452662006884 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 452662006885 metal binding triad; other site 452662006886 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 452662006887 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 452662006888 metal binding triad; other site 452662006889 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 452662006890 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 452662006891 active site 452662006892 intersubunit interactions; other site 452662006893 catalytic residue [active] 452662006894 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 452662006895 primosome assembly protein PriA; Validated; Region: PRK05580 452662006896 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 452662006897 ATP binding site [chemical binding]; other site 452662006898 putative Mg++ binding site [ion binding]; other site 452662006899 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662006900 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 452662006901 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 452662006902 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 452662006903 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 452662006904 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 452662006905 DNA binding site [nucleotide binding] 452662006906 active site 452662006907 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 452662006908 Plant ATP synthase F0; Region: YMF19; cl07975 452662006909 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 452662006910 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 452662006911 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 452662006912 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 452662006913 beta subunit interaction interface [polypeptide binding]; other site 452662006914 Walker A motif; other site 452662006915 ATP binding site [chemical binding]; other site 452662006916 Walker B motif; other site 452662006917 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 452662006918 LysE type translocator; Region: LysE; cl00565 452662006919 ATP synthase; Region: ATP-synt; cl00365 452662006920 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 452662006921 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 452662006922 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 452662006923 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 452662006924 alpha subunit interaction interface [polypeptide binding]; other site 452662006925 Walker A motif; other site 452662006926 ATP binding site [chemical binding]; other site 452662006927 Walker B motif; other site 452662006928 inhibitor binding site; inhibition site 452662006929 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 452662006930 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 452662006931 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 452662006932 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 452662006933 ATP binding site [chemical binding]; other site 452662006934 Walker A motif; other site 452662006935 hexamer interface [polypeptide binding]; other site 452662006936 Walker B motif; other site 452662006937 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662006938 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 452662006939 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 452662006940 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 452662006941 Transcriptional regulator [Transcription]; Region: LysR; COG0583 452662006942 Helix-turn-helix domains; Region: HTH; cl00088 452662006943 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 452662006944 dimerization interface [polypeptide binding]; other site 452662006945 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 452662006946 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 452662006947 putative active site [active] 452662006948 putative substrate binding site [chemical binding]; other site 452662006949 ATP binding site [chemical binding]; other site 452662006950 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 452662006951 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 452662006952 active site 452662006953 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 452662006954 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662006955 NAD(P) binding site [chemical binding]; other site 452662006956 active site 452662006957 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 452662006958 classical (c) SDRs; Region: SDR_c; cd05233 452662006959 NAD(P) binding site [chemical binding]; other site 452662006960 active site 452662006961 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 452662006962 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 452662006963 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 452662006964 putative substrate translocation pore; other site 452662006965 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 452662006966 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662006967 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662006968 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 452662006969 Helix-turn-helix domains; Region: HTH; cl00088 452662006970 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 452662006971 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 452662006972 Helix-turn-helix domains; Region: HTH; cl00088 452662006973 EamA-like transporter family; Region: EamA; cl01037 452662006974 enoyl-CoA hydratase; Provisional; Region: PRK06688 452662006975 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 452662006976 substrate binding site [chemical binding]; other site 452662006977 oxyanion hole (OAH) forming residues; other site 452662006978 trimer interface [polypeptide binding]; other site 452662006979 Membrane transport protein; Region: Mem_trans; cl09117 452662006980 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 452662006981 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 452662006982 [2Fe-2S] cluster binding site [ion binding]; other site 452662006983 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 452662006984 alpha subunit interface [polypeptide binding]; other site 452662006985 active site 452662006986 substrate binding site [chemical binding]; other site 452662006987 Fe binding site [ion binding]; other site 452662006988 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 452662006989 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662006990 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 452662006991 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 452662006992 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662006993 dihydroorotase; Validated; Region: pyrC; PRK09357 452662006994 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 452662006995 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 452662006996 active site 452662006997 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 452662006998 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 452662006999 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 452662007000 putative homodimer interface [polypeptide binding]; other site 452662007001 KOW motif; Region: KOW; cl00354 452662007002 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 452662007003 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 452662007004 23S rRNA interface [nucleotide binding]; other site 452662007005 L7/L12 interface [polypeptide binding]; other site 452662007006 putative thiostrepton binding site; other site 452662007007 L25 interface [polypeptide binding]; other site 452662007008 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 452662007009 mRNA/rRNA interface [nucleotide binding]; other site 452662007010 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 452662007011 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 452662007012 ATP binding site [chemical binding]; other site 452662007013 Mg++ binding site [ion binding]; other site 452662007014 motif III; other site 452662007015 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 452662007016 nucleotide binding region [chemical binding]; other site 452662007017 ATP-binding site [chemical binding]; other site 452662007018 DbpA RNA binding domain; Region: DbpA; pfam03880 452662007019 putative cation:proton antiport protein; Provisional; Region: PRK10669 452662007020 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 452662007021 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662007022 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 452662007023 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 452662007024 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 452662007025 GTPase CgtA; Reviewed; Region: obgE; PRK12299 452662007026 GTP1/OBG; Region: GTP1_OBG; pfam01018 452662007027 Obg GTPase; Region: Obg; cd01898 452662007028 G1 box; other site 452662007029 GTP/Mg2+ binding site [chemical binding]; other site 452662007030 Switch I region; other site 452662007031 G2 box; other site 452662007032 G3 box; other site 452662007033 Switch II region; other site 452662007034 G4 box; other site 452662007035 G5 box; other site 452662007036 gamma-glutamyl kinase; Provisional; Region: PRK05429 452662007037 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 452662007038 nucleotide binding site [chemical binding]; other site 452662007039 homotetrameric interface [polypeptide binding]; other site 452662007040 putative phosphate binding site [ion binding]; other site 452662007041 putative allosteric binding site; other site 452662007042 PUA domain; Region: PUA; cl00607 452662007043 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 452662007044 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662007045 NAD(P) binding site [chemical binding]; other site 452662007046 active site 452662007047 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 452662007048 dihydropteroate synthase; Region: DHPS; TIGR01496 452662007049 substrate binding pocket [chemical binding]; other site 452662007050 dimer interface [polypeptide binding]; other site 452662007051 inhibitor binding site; inhibition site 452662007052 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 452662007053 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662007054 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 452662007055 dimerization interface [polypeptide binding]; other site 452662007056 putative DNA binding site [nucleotide binding]; other site 452662007057 putative Zn2+ binding site [ion binding]; other site 452662007058 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 452662007059 Peptidase family M23; Region: Peptidase_M23; pfam01551 452662007060 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 452662007061 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 452662007062 nucleotide binding region [chemical binding]; other site 452662007063 ATP-binding site [chemical binding]; other site 452662007064 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 452662007065 RNA binding surface [nucleotide binding]; other site 452662007066 Ferredoxin [Energy production and conversion]; Region: COG1146 452662007067 4Fe-4S binding domain; Region: Fer4; cl02805 452662007068 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 452662007069 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 452662007070 D-aminopeptidase; Reviewed; Region: PRK13128 452662007071 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 452662007072 Helix-turn-helix domains; Region: HTH; cl00088 452662007073 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 452662007074 peroxiredoxin; Region: AhpC; TIGR03137 452662007075 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 452662007076 dimer interface [polypeptide binding]; other site 452662007077 decamer (pentamer of dimers) interface [polypeptide binding]; other site 452662007078 catalytic triad [active] 452662007079 peroxidatic and resolving cysteines [active] 452662007080 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 452662007081 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 452662007082 catalytic residue [active] 452662007083 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 452662007084 catalytic residues [active] 452662007085 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 452662007086 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 452662007087 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 452662007088 RNA/DNA hybrid binding site [nucleotide binding]; other site 452662007089 active site 452662007090 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 452662007091 dimer interface [polypeptide binding]; other site 452662007092 substrate binding site [chemical binding]; other site 452662007093 ATP binding site [chemical binding]; other site 452662007094 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 452662007095 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 452662007096 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 452662007097 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 452662007098 active site 452662007099 substrate binding site [chemical binding]; other site 452662007100 metal binding site [ion binding]; metal-binding site 452662007101 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 452662007102 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 452662007103 amino acid transporter; Region: 2A0306; TIGR00909 452662007104 Spore germination protein; Region: Spore_permease; cl15802 452662007105 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 452662007106 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 452662007107 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 452662007108 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 452662007109 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 452662007110 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 452662007111 FeS/SAM binding site; other site 452662007112 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 452662007113 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 452662007114 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 452662007115 P loop; other site 452662007116 GTP binding site [chemical binding]; other site 452662007117 Intracellular septation protein A; Region: IspA; cl01098 452662007118 Predicted membrane protein [Function unknown]; Region: COG3748 452662007119 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 452662007120 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 452662007121 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 452662007122 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 452662007123 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 452662007124 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 452662007125 HSP70 interaction site [polypeptide binding]; other site 452662007126 patatin-related protein; Region: TIGR03607 452662007127 Protein of unknown function (DUF3376); Region: DUF3376; pfam11856 452662007128 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 452662007129 aromatic arch; other site 452662007130 DCoH dimer interaction site [polypeptide binding]; other site 452662007131 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 452662007132 DCoH tetramer interaction site [polypeptide binding]; other site 452662007133 substrate binding site [chemical binding]; other site 452662007134 Possibl zinc metallo-peptidase; Region: DUF1025; cl01577 452662007135 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662007136 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 452662007137 Walker A/P-loop; other site 452662007138 ATP binding site [chemical binding]; other site 452662007139 Q-loop/lid; other site 452662007140 ABC transporter signature motif; other site 452662007141 Walker B; other site 452662007142 D-loop; other site 452662007143 H-loop/switch region; other site 452662007144 CcmB protein; Region: CcmB; cl01016 452662007145 Chorismate mutase type II; Region: CM_2; cl00693 452662007146 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 452662007147 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 452662007148 substrate binding pocket [chemical binding]; other site 452662007149 chain length determination region; other site 452662007150 substrate-Mg2+ binding site; other site 452662007151 catalytic residues [active] 452662007152 aspartate-rich region 1; other site 452662007153 active site lid residues [active] 452662007154 aspartate-rich region 2; other site 452662007155 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 452662007156 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 452662007157 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 452662007158 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 452662007159 ATP binding site [chemical binding]; other site 452662007160 putative Mg++ binding site [ion binding]; other site 452662007161 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 452662007162 nucleotide binding region [chemical binding]; other site 452662007163 Helicase associated domain (HA2); Region: HA2; cl04503 452662007164 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 452662007165 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 452662007166 Phosphopantetheine attachment site; Region: PP-binding; cl09936 452662007167 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 452662007168 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 452662007169 substrate-cofactor binding pocket; other site 452662007170 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452662007171 catalytic residue [active] 452662007172 CHASE3 domain; Region: CHASE3; cl05000 452662007173 sensory histidine kinase AtoS; Provisional; Region: PRK11360 452662007174 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 452662007175 ATP binding site [chemical binding]; other site 452662007176 Mg2+ binding site [ion binding]; other site 452662007177 G-X-G motif; other site 452662007178 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 452662007179 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 452662007180 active site 452662007181 phosphorylation site [posttranslational modification] 452662007182 intermolecular recognition site; other site 452662007183 dimerization interface [polypeptide binding]; other site 452662007184 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662007185 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 452662007186 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 452662007187 tetramer interface [polypeptide binding]; other site 452662007188 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452662007189 catalytic residue [active] 452662007190 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 452662007191 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 452662007192 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 452662007193 catalytic residue [active] 452662007194 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 452662007195 lipoyl attachment site [posttranslational modification]; other site 452662007196 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 452662007197 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 452662007198 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 452662007199 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 452662007200 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 452662007201 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 452662007202 binding surface 452662007203 TPR motif; other site 452662007204 Sporulation related domain; Region: SPOR; cl10051 452662007205 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 452662007206 nucleotide binding site [chemical binding]; other site 452662007207 SulA interaction site; other site 452662007208 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 452662007209 Cell division protein FtsA; Region: FtsA; cl11496 452662007210 Cell division protein FtsA; Region: FtsA; cl11496 452662007211 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 452662007212 Cell division protein FtsQ; Region: FtsQ; pfam03799 452662007213 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 452662007214 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 452662007215 ATP-grasp domain; Region: ATP-grasp_4; cl03087 452662007216 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 452662007217 FAD binding domain; Region: FAD_binding_4; pfam01565 452662007218 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 452662007219 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 452662007220 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 452662007221 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 452662007222 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 452662007223 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 452662007224 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 452662007225 homodimer interface [polypeptide binding]; other site 452662007226 active site 452662007227 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 452662007228 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 452662007229 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662007230 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 452662007231 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 452662007232 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 452662007233 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 452662007234 Mg++ binding site [ion binding]; other site 452662007235 putative catalytic motif [active] 452662007236 putative substrate binding site [chemical binding]; other site 452662007237 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 452662007238 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 452662007239 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 452662007240 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 452662007241 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 452662007242 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 452662007243 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 452662007244 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 452662007245 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 452662007246 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 452662007247 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 452662007248 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662007249 cell division protein MraZ; Reviewed; Region: PRK00326 452662007250 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 452662007251 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 452662007252 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 452662007253 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 452662007254 dimer interface [polypeptide binding]; other site 452662007255 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452662007256 catalytic residue [active] 452662007257 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 452662007258 Entericidin EcnA/B family; Region: Entericidin; cl02322 452662007259 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 452662007260 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 452662007261 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 452662007262 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 452662007263 ScpA/B protein; Region: ScpA_ScpB; cl00598 452662007264 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 452662007265 Sporulation related domain; Region: SPOR; cl10051 452662007266 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 452662007267 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 452662007268 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 452662007269 active site 452662007270 HIGH motif; other site 452662007271 KMSK motif region; other site 452662007272 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 452662007273 tRNA binding surface [nucleotide binding]; other site 452662007274 anticodon binding site; other site 452662007275 LytB protein; Region: LYTB; cl00507 452662007276 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 452662007277 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 452662007278 Phosphotransferase enzyme family; Region: APH; pfam01636 452662007279 putative active site [active] 452662007280 putative substrate binding site [chemical binding]; other site 452662007281 ATP binding site [chemical binding]; other site 452662007282 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 452662007283 RNA/DNA hybrid binding site [nucleotide binding]; other site 452662007284 active site 452662007285 SCP: SCP-like extracellular protein domain, found in eukaryotes and prokaryotes. This family includes plant pathogenesis-related protein 1 (PR-1), which accumulates after infections with pathogens, and may act as an anti-fungal agent or be involved in...; Region: SCP; cl00133 452662007286 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 452662007287 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 452662007288 FeS/SAM binding site; other site 452662007289 HemN C-terminal domain; Region: HemN_C; pfam06969 452662007290 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 452662007291 Helix-turn-helix domains; Region: HTH; cl00088 452662007292 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 452662007293 putative GSH binding site [chemical binding]; other site 452662007294 catalytic residues [active] 452662007295 BolA-like protein; Region: BolA; cl00386 452662007296 Domain of unknown function (DUF1476); Region: DUF1476; cl11571 452662007297 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 452662007298 substrate binding site [chemical binding]; other site 452662007299 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 452662007300 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 452662007301 substrate binding site [chemical binding]; other site 452662007302 ligand binding site [chemical binding]; other site 452662007303 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 452662007304 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 452662007305 putative C-terminal domain interface [polypeptide binding]; other site 452662007306 putative GSH binding site (G-site) [chemical binding]; other site 452662007307 putative dimer interface [polypeptide binding]; other site 452662007308 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 452662007309 putative N-terminal domain interface [polypeptide binding]; other site 452662007310 putative dimer interface [polypeptide binding]; other site 452662007311 putative substrate binding pocket (H-site) [chemical binding]; other site 452662007312 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 452662007313 tetramer interface [polypeptide binding]; other site 452662007314 active site 452662007315 Mg2+/Mn2+ binding site [ion binding]; other site 452662007316 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 452662007317 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 452662007318 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 452662007319 Domain of unknown function (DUF955); Region: DUF955; cl01076 452662007320 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 452662007321 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 452662007322 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 452662007323 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 452662007324 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 452662007325 dimerization interface [polypeptide binding]; other site 452662007326 active site 452662007327 Quinolinate synthetase A protein; Region: NadA; cl00420 452662007328 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 452662007329 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 452662007330 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 452662007331 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 452662007332 active site 452662007333 DNA binding site [nucleotide binding] 452662007334 Int/Topo IB signature motif; other site 452662007335 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 452662007336 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 452662007337 glutathione synthetase; Provisional; Region: PRK05246 452662007338 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 452662007339 ATP-grasp domain; Region: ATP-grasp_4; cl03087 452662007340 Restriction endonuclease; Region: Mrr_cat; cl00516 452662007341 Predicted methyltransferases [General function prediction only]; Region: COG0313 452662007342 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 452662007343 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 452662007344 putative ligand binding site [chemical binding]; other site 452662007345 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 452662007346 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 452662007347 Walker A/P-loop; other site 452662007348 ATP binding site [chemical binding]; other site 452662007349 Q-loop/lid; other site 452662007350 ABC transporter signature motif; other site 452662007351 Walker B; other site 452662007352 D-loop; other site 452662007353 H-loop/switch region; other site 452662007354 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 452662007355 ABC-ATPase subunit interface; other site 452662007356 dimer interface [polypeptide binding]; other site 452662007357 putative PBP binding regions; other site 452662007358 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 452662007359 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 452662007360 intersubunit interface [polypeptide binding]; other site 452662007361 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 452662007362 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 452662007363 N-terminal plug; other site 452662007364 ligand-binding site [chemical binding]; other site 452662007365 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 452662007366 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 452662007367 GTP binding site; other site 452662007368 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 452662007369 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 452662007370 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 452662007371 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 452662007372 [4Fe-4S] binding site [ion binding]; other site 452662007373 molybdopterin cofactor binding site; other site 452662007374 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 452662007375 molybdopterin cofactor binding site; other site 452662007376 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 452662007377 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 452662007378 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 452662007379 [2Fe-2S] cluster binding site [ion binding]; other site 452662007380 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 452662007381 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 452662007382 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 452662007383 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 452662007384 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 452662007385 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 452662007386 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 452662007387 putative substrate translocation pore; other site 452662007388 NMT1-like family; Region: NMT1_2; cl15260 452662007389 NMT1/THI5 like; Region: NMT1; pfam09084 452662007390 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 452662007391 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 452662007392 ANTAR domain; Region: ANTAR; cl04297 452662007393 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 452662007394 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 452662007395 putative substrate translocation pore; other site 452662007396 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 452662007397 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662007398 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662007399 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 452662007400 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 452662007401 Helix-turn-helix domains; Region: HTH; cl00088 452662007402 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 452662007403 Response regulator receiver domain; Region: Response_reg; pfam00072 452662007404 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 452662007405 active site 452662007406 phosphorylation site [posttranslational modification] 452662007407 intermolecular recognition site; other site 452662007408 dimerization interface [polypeptide binding]; other site 452662007409 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 452662007410 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 452662007411 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662007412 diaminopimelate decarboxylase; Region: lysA; TIGR01048 452662007413 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 452662007414 active site 452662007415 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 452662007416 substrate binding site [chemical binding]; other site 452662007417 catalytic residues [active] 452662007418 dimer interface [polypeptide binding]; other site 452662007419 argininosuccinate lyase; Provisional; Region: PRK00855 452662007420 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 452662007421 active sites [active] 452662007422 tetramer interface [polypeptide binding]; other site 452662007423 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 452662007424 catalytic residues [active] 452662007425 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 452662007426 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 452662007427 N-terminal plug; other site 452662007428 ligand-binding site [chemical binding]; other site 452662007429 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 452662007430 homotrimer interaction site [polypeptide binding]; other site 452662007431 putative active site [active] 452662007432 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 452662007433 diiron binding motif [ion binding]; other site 452662007434 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 452662007435 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 452662007436 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 452662007437 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 452662007438 protein binding site [polypeptide binding]; other site 452662007439 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 452662007440 Catalytic dyad [active] 452662007441 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 452662007442 active site 452662007443 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 452662007444 putative ADP-binding pocket [chemical binding]; other site 452662007445 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 452662007446 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 452662007447 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 452662007448 dimer interface [polypeptide binding]; other site 452662007449 phosphorylation site [posttranslational modification] 452662007450 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 452662007451 ATP binding site [chemical binding]; other site 452662007452 Mg2+ binding site [ion binding]; other site 452662007453 G-X-G motif; other site 452662007454 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 452662007455 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 452662007456 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 452662007457 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 452662007458 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 452662007459 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 452662007460 dimer interface [polypeptide binding]; other site 452662007461 conserved gate region; other site 452662007462 putative PBP binding loops; other site 452662007463 ABC-ATPase subunit interface; other site 452662007464 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 452662007465 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 452662007466 Walker A/P-loop; other site 452662007467 ATP binding site [chemical binding]; other site 452662007468 Q-loop/lid; other site 452662007469 ABC transporter signature motif; other site 452662007470 Walker B; other site 452662007471 D-loop; other site 452662007472 H-loop/switch region; other site 452662007473 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 452662007474 PhoU domain; Region: PhoU; pfam01895 452662007475 PhoU domain; Region: PhoU; pfam01895 452662007476 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 452662007477 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 452662007478 active site 452662007479 phosphorylation site [posttranslational modification] 452662007480 intermolecular recognition site; other site 452662007481 dimerization interface [polypeptide binding]; other site 452662007482 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 452662007483 DNA binding site [nucleotide binding] 452662007484 Trm112p-like protein; Region: Trm112p; cl01066 452662007485 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 452662007486 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 452662007487 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 452662007488 catalytic residues [active] 452662007489 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 452662007490 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 452662007491 prephenate dehydratase; Provisional; Region: PRK11899 452662007492 Prephenate dehydratase; Region: PDT; pfam00800 452662007493 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 452662007494 putative L-Phe binding site [chemical binding]; other site 452662007495 Cytochrome c; Region: Cytochrom_C; cl11414 452662007496 D-glycerate 3-kinase; Region: PLN02796 452662007497 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662007498 active site 452662007499 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 452662007500 Domain of unknown function DUF21; Region: DUF21; pfam01595 452662007501 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 452662007502 Transporter associated domain; Region: CorC_HlyC; cl08393 452662007503 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 452662007504 ligand binding site [chemical binding]; other site 452662007505 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 452662007506 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 452662007507 potential frameshift: common BLAST hit: gi|85373477|ref|YP_457539.1| polyphosphate kinase 452662007508 polyphosphate kinase; Provisional; Region: PRK05443 452662007509 polyphosphate kinase; Provisional; Region: PRK05443 452662007510 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 452662007511 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 452662007512 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 452662007513 putative domain interface [polypeptide binding]; other site 452662007514 putative active site [active] 452662007515 catalytic site [active] 452662007516 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 452662007517 putative active site [active] 452662007518 catalytic site [active] 452662007519 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662007520 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 452662007521 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 452662007522 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 452662007523 dimerization interface [polypeptide binding]; other site 452662007524 putative ATP binding site [chemical binding]; other site 452662007525 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 452662007526 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 452662007527 active site 452662007528 substrate binding site [chemical binding]; other site 452662007529 cosubstrate binding site; other site 452662007530 catalytic site [active] 452662007531 Protein of unknown function (DUF419); Region: DUF419; cl15265 452662007532 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 452662007533 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662007534 Walker A/P-loop; other site 452662007535 ATP binding site [chemical binding]; other site 452662007536 Q-loop/lid; other site 452662007537 ABC transporter signature motif; other site 452662007538 Walker B; other site 452662007539 D-loop; other site 452662007540 H-loop/switch region; other site 452662007541 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 452662007542 putative active site [active] 452662007543 L-aspartate oxidase; Provisional; Region: PRK09077 452662007544 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662007545 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 452662007546 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 452662007547 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 452662007548 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 452662007549 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 452662007550 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 452662007551 substrate binding pocket [chemical binding]; other site 452662007552 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 452662007553 B12 binding site [chemical binding]; other site 452662007554 cobalt ligand [ion binding]; other site 452662007555 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 452662007556 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 452662007557 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 452662007558 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 452662007559 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 452662007560 FAD binding site [chemical binding]; other site 452662007561 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 452662007562 dimerization interface [polypeptide binding]; other site 452662007563 putative DNA binding site [nucleotide binding]; other site 452662007564 putative Zn2+ binding site [ion binding]; other site 452662007565 Methyltransferase domain; Region: Methyltransf_31; pfam13847 452662007566 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 452662007567 S-adenosylmethionine binding site [chemical binding]; other site 452662007568 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 452662007569 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 452662007570 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 452662007571 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 452662007572 nucleoside/Zn binding site; other site 452662007573 dimer interface [polypeptide binding]; other site 452662007574 catalytic motif [active] 452662007575 GtrA-like protein; Region: GtrA; cl00971 452662007576 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 452662007577 GIY-YIG motif/motif A; other site 452662007578 putative active site [active] 452662007579 putative metal binding site [ion binding]; other site 452662007580 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 452662007581 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 452662007582 active site 452662007583 phosphorylation site [posttranslational modification] 452662007584 intermolecular recognition site; other site 452662007585 dimerization interface [polypeptide binding]; other site 452662007586 LytTr DNA-binding domain; Region: LytTR; cl04498 452662007587 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 452662007588 Histidine kinase; Region: His_kinase; pfam06580 452662007589 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 452662007590 ATP binding site [chemical binding]; other site 452662007591 Mg2+ binding site [ion binding]; other site 452662007592 G-X-G motif; other site 452662007593 Helix-turn-helix domains; Region: HTH; cl00088 452662007594 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 452662007595 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 452662007596 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 452662007597 synthetase active site [active] 452662007598 NTP binding site [chemical binding]; other site 452662007599 metal binding site [ion binding]; metal-binding site 452662007600 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 452662007601 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 452662007602 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 452662007603 catalytic site [active] 452662007604 metal binding site [ion binding]; metal-binding site 452662007605 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 452662007606 23S rRNA interface [nucleotide binding]; other site 452662007607 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 452662007608 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 452662007609 L11 interface [polypeptide binding]; other site 452662007610 putative EF-Tu interaction site [polypeptide binding]; other site 452662007611 putative EF-G interaction site [polypeptide binding]; other site 452662007612 N-formylglutamate amidohydrolase; Region: FGase; cl01522 452662007613 Response regulator receiver domain; Region: Response_reg; pfam00072 452662007614 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 452662007615 active site 452662007616 phosphorylation site [posttranslational modification] 452662007617 intermolecular recognition site; other site 452662007618 dimerization interface [polypeptide binding]; other site 452662007619 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 452662007620 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 452662007621 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 452662007622 active site 452662007623 DNA binding site [nucleotide binding] 452662007624 Int/Topo IB signature motif; other site 452662007625 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; cl02270 452662007626 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 452662007627 HipA N-terminal domain; Region: Couple_hipA; cl11853 452662007628 HipA-like N-terminal domain; Region: HipA_N; pfam07805 452662007629 HipA-like C-terminal domain; Region: HipA_C; pfam07804 452662007630 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 452662007631 DNA binding site [nucleotide binding] 452662007632 active site 452662007633 Int/Topo IB signature motif; other site 452662007634 Fic/DOC family; Region: Fic; cl00960 452662007635 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 452662007636 DNA binding site [nucleotide binding] 452662007637 Int/Topo IB signature motif; other site 452662007638 active site 452662007639 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 452662007640 Transposase; Region: DEDD_Tnp_IS110; pfam01548 452662007641 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 452662007642 Fic family protein [Function unknown]; Region: COG3177 452662007643 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 452662007644 Fic/DOC family; Region: Fic; cl00960 452662007645 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 452662007646 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 452662007647 putative active site [active] 452662007648 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 452662007649 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 452662007650 Ligand binding site; other site 452662007651 Putative Catalytic site; other site 452662007652 DXD motif; other site 452662007653 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 452662007654 S-adenosylmethionine binding site [chemical binding]; other site 452662007655 GtrA-like protein; Region: GtrA; cl00971 452662007656 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 452662007657 Protein of unknown function (DUF2274); Region: DUF2274; cl02406 452662007658 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 452662007659 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 452662007660 VirB7 interaction site; other site 452662007661 VirB8 protein; Region: VirB8; cl01500 452662007662 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 452662007663 conjugal transfer protein TrbL; Provisional; Region: PRK13875 452662007664 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 452662007665 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 452662007666 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 452662007667 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662007668 Walker B; other site 452662007669 D-loop; other site 452662007670 H-loop/switch region; other site 452662007671 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 452662007672 TrbC/VIRB2 family; Region: TrbC; cl01583 452662007673 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 452662007674 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 452662007675 ATP binding site [chemical binding]; other site 452662007676 Walker A motif; other site 452662007677 hexamer interface [polypeptide binding]; other site 452662007678 Walker B motif; other site 452662007679 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 452662007680 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662007681 Walker A motif; other site 452662007682 ATP binding site [chemical binding]; other site 452662007683 Walker B motif; other site 452662007684 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 452662007685 active site 452662007686 NTP binding site [chemical binding]; other site 452662007687 metal binding triad [ion binding]; metal-binding site 452662007688 antibiotic binding site [chemical binding]; other site 452662007689 HEPN domain; Region: HEPN; cl00824 452662007690 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 452662007691 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 452662007692 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 452662007693 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 452662007694 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 452662007695 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 452662007696 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 452662007697 N-acetyl-D-glucosamine binding site [chemical binding]; other site 452662007698 catalytic residue [active] 452662007699 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 452662007700 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 452662007701 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 452662007702 Protein of unknown function (DUF736); Region: DUF736; cl02303 452662007703 PemK-like protein; Region: PemK; cl00995 452662007704 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 452662007705 ParB-like nuclease domain; Region: ParBc; cl02129 452662007706 plasmid partitioning protein; Provisional; Region: PRK13832 452662007707 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 452662007708 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 452662007709 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 452662007710 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 452662007711 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 452662007712 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 452662007713 active site 452662007714 DNA binding site [nucleotide binding] 452662007715 Int/Topo IB signature motif; other site 452662007716 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 452662007717 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 452662007718 Autoinducer binding domain; Region: Autoind_bind; pfam03472 452662007719 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 452662007720 DNA binding residues [nucleotide binding] 452662007721 dimerization interface [polypeptide binding]; other site 452662007722 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 452662007723 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 452662007724 Transcriptional regulators [Transcription]; Region: GntR; COG1802 452662007725 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 452662007726 DNA-binding site [nucleotide binding]; DNA binding site 452662007727 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 452662007728 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 452662007729 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 452662007730 Ligand Binding Site [chemical binding]; other site 452662007731 Molecular Tunnel; other site 452662007732 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 452662007733 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 452662007734 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662007735 Secretin and TonB N terminus short domain; Region: STN; cl06624 452662007736 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 452662007737 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 452662007738 N-terminal plug; other site 452662007739 ligand-binding site [chemical binding]; other site 452662007740 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 452662007741 FecR protein; Region: FecR; pfam04773 452662007742 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 452662007743 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 452662007744 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 452662007745 DNA binding residues [nucleotide binding] 452662007746 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 452662007747 active site 452662007748 DNA binding site [nucleotide binding] 452662007749 Int/Topo IB signature motif; other site 452662007750 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 452662007751 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 452662007752 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 452662007753 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 452662007754 active site 452662007755 substrate binding site [chemical binding]; other site 452662007756 metal binding site [ion binding]; metal-binding site 452662007757 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 452662007758 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 452662007759 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 452662007760 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 452662007761 ABC-2 type transporter; Region: ABC2_membrane; cl11417 452662007762 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662007763 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 452662007764 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 452662007765 putative trimer interface [polypeptide binding]; other site 452662007766 putative CoA binding site [chemical binding]; other site 452662007767 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 452662007768 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 452662007769 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 452662007770 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 452662007771 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 452662007772 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 452662007773 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 452662007774 inhibitor-cofactor binding pocket; inhibition site 452662007775 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452662007776 catalytic residue [active] 452662007777 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 452662007778 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 452662007779 NADP-binding site; other site 452662007780 homotetramer interface [polypeptide binding]; other site 452662007781 substrate binding site [chemical binding]; other site 452662007782 homodimer interface [polypeptide binding]; other site 452662007783 active site 452662007784 Transposase domain (DUF772); Region: DUF772; cl15789 452662007785 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 452662007786 Transposase domain (DUF772); Region: DUF772; cl15789 452662007787 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 452662007788 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 452662007789 NADP-binding site; other site 452662007790 homotetramer interface [polypeptide binding]; other site 452662007791 substrate binding site [chemical binding]; other site 452662007792 homodimer interface [polypeptide binding]; other site 452662007793 active site 452662007794 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 452662007795 Helix-turn-helix domains; Region: HTH; cl00088 452662007796 Integrase core domain; Region: rve; cl01316 452662007797 transposase/IS protein; Provisional; Region: PRK09183 452662007798 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 452662007799 Walker A motif; other site 452662007800 ATP binding site [chemical binding]; other site 452662007801 Walker B motif; other site 452662007802 Transposase domain (DUF772); Region: DUF772; cl15789 452662007803 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 452662007804 Transposase domain (DUF772); Region: DUF772; cl15789 452662007805 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 452662007806 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 452662007807 recognition site for restriction enzyme PmeI 452662007808 Transposase, Mutator family; Region: Transposase_mut; pfam00872 452662007809 Transposase, Mutator family; Region: Transposase_mut; pfam00872 452662007810 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 452662007811 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 452662007812 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 452662007813 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 452662007814 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 452662007815 nucleosidase; Provisional; Region: PRK05634 452662007816 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 452662007817 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 452662007818 active site 452662007819 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 452662007820 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 452662007821 cytochrome b; Provisional; Region: CYTB; MTH00191 452662007822 interchain domain interface [polypeptide binding]; other site 452662007823 intrachain domain interface; other site 452662007824 heme bH binding site [chemical binding]; other site 452662007825 Qi binding site; other site 452662007826 heme bL binding site [chemical binding]; other site 452662007827 Qo binding site; other site 452662007828 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 452662007829 interchain domain interface [polypeptide binding]; other site 452662007830 intrachain domain interface; other site 452662007831 Qi binding site; other site 452662007832 Qo binding site; other site 452662007833 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 452662007834 [2Fe-2S] cluster binding site [ion binding]; other site 452662007835 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 452662007836 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 452662007837 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 452662007838 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 452662007839 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 452662007840 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 452662007841 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 452662007842 Ligand Binding Site [chemical binding]; other site 452662007843 Disulfide bond chaperones of the HSP33 family [Posttranslational modification, protein turnover, chaperones]; Region: COG1281 452662007844 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 452662007845 dimerization interface [polypeptide binding]; other site 452662007846 domain crossover interface; other site 452662007847 redox-dependent activation switch; other site 452662007848 ornithine carbamoyltransferase; Provisional; Region: PRK00779 452662007849 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 452662007850 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662007851 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 452662007852 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 452662007853 inhibitor-cofactor binding pocket; inhibition site 452662007854 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452662007855 catalytic residue [active] 452662007856 Flagellar protein FliS; Region: FliS; cl00654 452662007857 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 452662007858 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 452662007859 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 452662007860 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 452662007861 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 452662007862 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 452662007863 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 452662007864 FliP family; Region: FliP; cl00593 452662007865 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 452662007866 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 452662007867 flagellar motor switch protein FliM; Region: fliM_switch; TIGR01397 452662007868 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 452662007869 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 452662007870 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 452662007871 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 452662007872 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662007873 Walker A motif; other site 452662007874 ATP binding site [chemical binding]; other site 452662007875 Walker B motif; other site 452662007876 Flagellar assembly protein FliH; Region: FliH; pfam02108 452662007877 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 452662007878 MgtE intracellular N domain; Region: MgtE_N; cl15244 452662007879 FliG C-terminal domain; Region: FliG_C; pfam01706 452662007880 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 452662007881 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 452662007882 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 452662007883 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 452662007884 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 452662007885 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 452662007886 Walker A motif; other site 452662007887 ATP binding site [chemical binding]; other site 452662007888 Walker B motif; other site 452662007889 arginine finger; other site 452662007890 Helix-turn-helix domains; Region: HTH; cl00088 452662007891 flagellin; Provisional; Region: PRK12802 452662007892 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 452662007893 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 452662007894 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 452662007895 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 452662007896 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 452662007897 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 452662007898 active site 452662007899 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 452662007900 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 452662007901 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 452662007902 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 452662007903 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 452662007904 DNA binding residues [nucleotide binding] 452662007905 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 452662007906 FHIPEP family; Region: FHIPEP; pfam00771 452662007907 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 452662007908 catalytic residue [active] 452662007909 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 452662007910 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 452662007911 SAF domain; Region: SAF; cl00555 452662007912 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 452662007913 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 452662007914 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 452662007915 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 452662007916 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 452662007917 flagellar basal-body rod protein FlgC; Region: FlgC; TIGR01395 452662007918 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 452662007919 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 452662007920 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 452662007921 FlgD Ig-like domain; Region: FlgD_ig; cl15790 452662007922 fagellar hook-basal body proteins; Region: FlgEFG_subfam; TIGR03506 452662007923 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 452662007924 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 452662007925 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 452662007926 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 452662007927 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 452662007928 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 452662007929 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 452662007930 Flagellar L-ring protein; Region: FlgH; cl00905 452662007931 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 452662007932 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 452662007933 Rod binding protein; Region: Rod-binding; cl01626 452662007934 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 452662007935 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 452662007936 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 452662007937 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 452662007938 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 452662007939 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 452662007940 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 452662007941 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 452662007942 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 452662007943 ligand binding site [chemical binding]; other site 452662007944 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 452662007945 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 452662007946 dimer interface [polypeptide binding]; other site 452662007947 phosphorylation site [posttranslational modification] 452662007948 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 452662007949 ATP binding site [chemical binding]; other site 452662007950 Mg2+ binding site [ion binding]; other site 452662007951 G-X-G motif; other site 452662007952 osmolarity response regulator; Provisional; Region: ompR; PRK09468 452662007953 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 452662007954 active site 452662007955 phosphorylation site [posttranslational modification] 452662007956 intermolecular recognition site; other site 452662007957 dimerization interface [polypeptide binding]; other site 452662007958 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 452662007959 DNA binding site [nucleotide binding] 452662007960 EF-hand domain pair; Region: EF_hand_5; pfam13499 452662007961 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 452662007962 Ca2+ binding site [ion binding]; other site 452662007963 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl08302 452662007964 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 452662007965 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 452662007966 ANP binding site [chemical binding]; other site 452662007967 Substrate Binding Site II [chemical binding]; other site 452662007968 Substrate Binding Site I [chemical binding]; other site 452662007969 Helix-turn-helix domains; Region: HTH; cl00088 452662007970 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 452662007971 dimerization interface [polypeptide binding]; other site 452662007972 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 452662007973 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 452662007974 N-terminal plug; other site 452662007975 ligand-binding site [chemical binding]; other site 452662007976 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 452662007977 nudix motif; other site 452662007978 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 452662007979 Phosphate transporter family; Region: PHO4; cl00396 452662007980 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 452662007981 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 452662007982 non-specific DNA binding site [nucleotide binding]; other site 452662007983 salt bridge; other site 452662007984 sequence-specific DNA binding site [nucleotide binding]; other site 452662007985 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 452662007986 Domain of unknown function (DUF955); Region: DUF955; cl01076 452662007987 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 452662007988 recognition site for restriction enzyme SwaI 452662007989 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 452662007990 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 452662007991 P-loop; other site 452662007992 Magnesium ion binding site [ion binding]; other site 452662007993 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 452662007994 Magnesium ion binding site [ion binding]; other site 452662007995 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 452662007996 DNA-binding site [nucleotide binding]; DNA binding site 452662007997 RNA-binding motif; other site 452662007998 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 452662007999 DNA-binding site [nucleotide binding]; DNA binding site 452662008000 RNA-binding motif; other site 452662008001 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 452662008002 catalytic site [active] 452662008003 putative active site [active] 452662008004 putative substrate binding site [chemical binding]; other site 452662008005 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 452662008006 OstA-like protein; Region: OstA; cl00844 452662008007 bifunctional RNase H/acid phosphatase; Provisional; Region: PRK07238 452662008008 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 452662008009 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 452662008010 active site 452662008011 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 452662008012 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 452662008013 putative active site [active] 452662008014 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 452662008015 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 452662008016 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 452662008017 putative NAD(P) binding site [chemical binding]; other site 452662008018 active site 452662008019 putative substrate binding site [chemical binding]; other site 452662008020 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 452662008021 JmjC domain, hydroxylase; Region: JmjC; cl15814 452662008022 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 452662008023 Protein of unknown function (DUF962); Region: DUF962; cl01879 452662008024 beta-lactamase TEM; Provisional; Region: PRK15442 452662008025 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 452662008026 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 452662008027 ligand binding site [chemical binding]; other site 452662008028 active site 452662008029 UGI interface [polypeptide binding]; other site 452662008030 catalytic site [active] 452662008031 Protein of unknown function, DUF488; Region: DUF488; cl01246 452662008032 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 452662008033 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 452662008034 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 452662008035 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 452662008036 Uncharacterized conserved protein [Function unknown]; Region: COG2308 452662008037 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 452662008038 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 452662008039 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 452662008040 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 452662008041 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 452662008042 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 452662008043 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 452662008044 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 452662008045 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662008046 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 452662008047 active site 452662008048 integrase; Provisional; Region: PRK09692 452662008049 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 452662008050 active site 452662008051 Int/Topo IB signature motif; other site 452662008052 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662008053 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662008054 Restriction endonuclease; Region: Mrr_cat; cl00516 452662008055 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 452662008056 non-specific DNA binding site [nucleotide binding]; other site 452662008057 salt bridge; other site 452662008058 sequence-specific DNA binding site [nucleotide binding]; other site 452662008059 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 452662008060 Protein of unknown function (DUF3631); Region: DUF3631; pfam12307 452662008061 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 452662008062 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 452662008063 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 452662008064 active site 452662008065 metal binding site [ion binding]; metal-binding site 452662008066 Epoxide hydrolase N terminus; Region: EHN; pfam06441 452662008067 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 452662008068 short chain dehydrogenase; Provisional; Region: PRK06180 452662008069 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 452662008070 NADP binding site [chemical binding]; other site 452662008071 active site 452662008072 steroid binding site; other site 452662008073 Transcriptional regulator [Transcription]; Region: LysR; COG0583 452662008074 Helix-turn-helix domains; Region: HTH; cl00088 452662008075 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 452662008076 dimerization interface [polypeptide binding]; other site 452662008077 Protein of unknown function (DUF1109); Region: DUF1109; cl02071 452662008078 RNA polymerase sigma factor; Provisional; Region: PRK12539 452662008079 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 452662008080 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 452662008081 short chain dehydrogenase; Provisional; Region: PRK06523 452662008082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662008083 NAD(P) binding site [chemical binding]; other site 452662008084 active site 452662008085 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 452662008086 Transcriptional regulator [Transcription]; Region: LysR; COG0583 452662008087 Helix-turn-helix domains; Region: HTH; cl00088 452662008088 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 452662008089 putative effector binding pocket; other site 452662008090 putative dimerization interface [polypeptide binding]; other site 452662008091 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine'...; Region: Peptidase_C39_likeA; cd02417 452662008092 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 452662008093 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 452662008094 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662008095 Walker A/P-loop; other site 452662008096 ATP binding site [chemical binding]; other site 452662008097 Q-loop/lid; other site 452662008098 ABC transporter signature motif; other site 452662008099 Walker B; other site 452662008100 D-loop; other site 452662008101 H-loop/switch region; other site 452662008102 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 452662008103 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662008104 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662008105 RTX toxin acyltransferase family; Region: HlyC; cl01131 452662008106 Sel1 repeat; Region: Sel1; cl02723 452662008107 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 452662008108 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 452662008109 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 452662008110 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 452662008111 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 452662008112 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 452662008113 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 452662008114 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 452662008115 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 452662008116 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 452662008117 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 452662008118 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 452662008119 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 452662008120 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 452662008121 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 452662008122 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 452662008123 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 452662008124 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 452662008125 conjugal transfer relaxase TraA; Provisional; Region: PRK13889 452662008126 MobA/MobL family; Region: MobA_MobL; pfam03389 452662008127 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662008128 Family description; Region: UvrD_C_2; cl15862 452662008129 Conjugal transfer protein TraD; Region: TraD; cl05753 452662008130 Conjugal transfer protein TraD; Region: TraD; cl05753 452662008131 HEPN domain; Region: HEPN; cl00824 452662008132 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 452662008133 ParB-like nuclease domain; Region: ParBc; cl02129 452662008134 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 452662008135 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 452662008136 TIR domain; Region: TIR_2; cl15770 452662008137 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 452662008138 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 452662008139 FeS/SAM binding site; other site 452662008140 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 452662008141 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 452662008142 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 452662008143 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 452662008144 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 452662008145 anti-TRAP (AT) protein specific to Bacilli; Region: anti-TRAP; cd10748 452662008146 dodecamer interface 1 [polypeptide binding]; other site 452662008147 dodecamer interface 2 [polypeptide binding]; other site 452662008148 TRAP binding interface [polypeptide binding]; other site 452662008149 trimer interface [polypeptide binding]; other site 452662008150 Zn binding site [ion binding]; other site 452662008151 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 452662008152 Helix-turn-helix domains; Region: HTH; cl00088 452662008153 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 452662008154 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 452662008155 active site 452662008156 metal binding site [ion binding]; metal-binding site 452662008157 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 452662008158 integrase; Provisional; Region: PRK09692 452662008159 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 452662008160 active site 452662008161 Int/Topo IB signature motif; other site 452662008162 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 452662008163 DHH family; Region: DHH; pfam01368 452662008164 DHHA1 domain; Region: DHHA1; pfam02272 452662008165 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 452662008166 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 452662008167 Surface antigen; Region: Bac_surface_Ag; cl03097 452662008168 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 452662008169 Family of unknown function (DUF490); Region: DUF490; pfam04357 452662008170 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 452662008171 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 452662008172 dimer interface [polypeptide binding]; other site 452662008173 putative CheW interface [polypeptide binding]; other site 452662008174 EamA-like transporter family; Region: EamA; cl01037 452662008175 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 452662008176 putative active site [active] 452662008177 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 452662008178 Fumarase C-terminus; Region: Fumerase_C; cl00795 452662008179 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 452662008180 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 452662008181 C-terminal domain interface [polypeptide binding]; other site 452662008182 GSH binding site (G-site) [chemical binding]; other site 452662008183 dimer interface [polypeptide binding]; other site 452662008184 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 452662008185 N-terminal domain interface [polypeptide binding]; other site 452662008186 dimer interface [polypeptide binding]; other site 452662008187 substrate binding pocket (H-site) [chemical binding]; other site 452662008188 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 452662008189 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 452662008190 Class I ribonucleotide reductase; Region: RNR_I; cd01679 452662008191 active site 452662008192 dimer interface [polypeptide binding]; other site 452662008193 catalytic residues [active] 452662008194 effector binding site; other site 452662008195 R2 peptide binding site; other site 452662008196 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 452662008197 putative active site [active] 452662008198 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 452662008199 dimer interface [polypeptide binding]; other site 452662008200 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 452662008201 putative radical transfer pathway; other site 452662008202 diiron center [ion binding]; other site 452662008203 tyrosyl radical; other site 452662008204 Transposase domain (DUF772); Region: DUF772; cl15789 452662008205 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 452662008206 Transposase domain (DUF772); Region: DUF772; cl15789 452662008207 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 452662008208 Catalytic site; other site 452662008209 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 452662008210 heme-binding site [chemical binding]; other site 452662008211 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_6; cd06154 452662008212 homotrimer interaction site [polypeptide binding]; other site 452662008213 putative active site [active] 452662008214 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 452662008215 ArsC family; Region: ArsC; pfam03960 452662008216 putative catalytic residues [active] 452662008217 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 452662008218 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 452662008219 active site 452662008220 catalytic site [active] 452662008221 Rrf2 family protein; Region: rrf2_super; TIGR00738 452662008222 Helix-turn-helix domains; Region: HTH; cl00088 452662008223 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 452662008224 MAPEG family; Region: MAPEG; cl09190 452662008225 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 452662008226 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 452662008227 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 452662008228 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 452662008229 dimer interface [polypeptide binding]; other site 452662008230 active site 452662008231 CoA binding pocket [chemical binding]; other site 452662008232 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 452662008233 IHF dimer interface [polypeptide binding]; other site 452662008234 IHF - DNA interface [nucleotide binding]; other site 452662008235 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 452662008236 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 452662008237 DNA binding residues [nucleotide binding] 452662008238 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 452662008239 catalytic core [active] 452662008240 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662008241 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 452662008242 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662008243 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 452662008244 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 452662008245 active site 452662008246 nucleotide binding site [chemical binding]; other site 452662008247 HIGH motif; other site 452662008248 KMSKS motif; other site 452662008249 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 452662008250 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 452662008251 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 452662008252 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 452662008253 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 452662008254 GAF domain; Region: GAF; cl15785 452662008255 Phytochrome region; Region: PHY; pfam00360 452662008256 Histidine kinase; Region: HisKA_2; cl06527 452662008257 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 452662008258 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 452662008259 active site 452662008260 phosphorylation site [posttranslational modification] 452662008261 intermolecular recognition site; other site 452662008262 dimerization interface [polypeptide binding]; other site 452662008263 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 452662008264 putative active site [active] 452662008265 metal binding site [ion binding]; metal-binding site 452662008266 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 452662008267 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 452662008268 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 452662008269 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 452662008270 aminotransferase; Validated; Region: PRK09148 452662008271 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 452662008272 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452662008273 homodimer interface [polypeptide binding]; other site 452662008274 catalytic residue [active] 452662008275 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 452662008276 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 452662008277 Phasin protein; Region: Phasin_2; cl11491 452662008278 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 452662008279 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 452662008280 Major Facilitator Superfamily; Region: MFS_1; pfam07690 452662008281 putative substrate translocation pore; other site 452662008282 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 452662008283 Prostaglandin dehydrogenases; Region: PGDH; cd05288 452662008284 NAD(P) binding site [chemical binding]; other site 452662008285 substrate binding site [chemical binding]; other site 452662008286 dimer interface [polypeptide binding]; other site 452662008287 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662008288 Helix-turn-helix domains; Region: HTH; cl00088 452662008289 Transcriptional regulator [Transcription]; Region: LysR; COG0583 452662008290 Helix-turn-helix domains; Region: HTH; cl00088 452662008291 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 452662008292 dimerization interface [polypeptide binding]; other site 452662008293 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 452662008294 allantoinase; Region: allantoinase; TIGR03178 452662008295 active site 452662008296 allantoate amidohydrolase; Reviewed; Region: PRK09290 452662008297 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 452662008298 active site 452662008299 metal binding site [ion binding]; metal-binding site 452662008300 dimer interface [polypeptide binding]; other site 452662008301 metabolite-proton symporter; Region: 2A0106; TIGR00883 452662008302 urocanate hydratase; Provisional; Region: PRK05414 452662008303 Uncharacterized conserved protein [Function unknown]; Region: COG3535 452662008304 Protein of unknown function (DUF917); Region: DUF917; pfam06032 452662008305 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 452662008306 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 452662008307 FMN binding site [chemical binding]; other site 452662008308 substrate binding site [chemical binding]; other site 452662008309 putative catalytic residue [active] 452662008310 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662008311 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 452662008312 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 452662008313 N-terminal plug; other site 452662008314 ligand-binding site [chemical binding]; other site 452662008315 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; cl00197 452662008316 active site 452662008317 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 452662008318 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 452662008319 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cl00089 452662008320 Protein of unknown function, DUF600; Region: DUF600; cl04640 452662008321 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 452662008322 excinuclease ABC subunit B; Provisional; Region: PRK05298 452662008323 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 452662008324 ATP-binding site [chemical binding]; other site 452662008325 ATP binding site [chemical binding]; other site 452662008326 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 452662008327 nucleotide binding region [chemical binding]; other site 452662008328 ATP-binding site [chemical binding]; other site 452662008329 Ultra-violet resistance protein B; Region: UvrB; pfam12344 452662008330 UvrB/uvrC motif; Region: UVR; pfam02151 452662008331 recombinase A; Provisional; Region: recA; PRK09354 452662008332 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 452662008333 hexamer interface [polypeptide binding]; other site 452662008334 Walker A motif; other site 452662008335 ATP binding site [chemical binding]; other site 452662008336 Walker B motif; other site 452662008337 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 452662008338 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 452662008339 active site 452662008340 phosphorylation site [posttranslational modification] 452662008341 intermolecular recognition site; other site 452662008342 dimerization interface [polypeptide binding]; other site 452662008343 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 452662008344 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 452662008345 dimer interface [polypeptide binding]; other site 452662008346 phosphorylation site [posttranslational modification] 452662008347 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 452662008348 ATP binding site [chemical binding]; other site 452662008349 Mg2+ binding site [ion binding]; other site 452662008350 G-X-G motif; other site 452662008351 Response regulator receiver domain; Region: Response_reg; pfam00072 452662008352 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 452662008353 active site 452662008354 phosphorylation site [posttranslational modification] 452662008355 intermolecular recognition site; other site 452662008356 dimerization interface [polypeptide binding]; other site 452662008357 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 452662008358 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 452662008359 SmpB-tmRNA interface; other site 452662008360 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 452662008361 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 452662008362 dimer interface [polypeptide binding]; other site 452662008363 active site 452662008364 catalytic residue [active] 452662008365 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 452662008366 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 452662008367 N-acetyl-D-glucosamine binding site [chemical binding]; other site 452662008368 catalytic residue [active] 452662008369 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 452662008370 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 452662008371 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 452662008372 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 452662008373 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 452662008374 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 452662008375 dimer interface [polypeptide binding]; other site 452662008376 anticodon binding site; other site 452662008377 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 452662008378 homodimer interface [polypeptide binding]; other site 452662008379 motif 1; other site 452662008380 active site 452662008381 motif 2; other site 452662008382 GAD domain; Region: GAD; pfam02938 452662008383 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 452662008384 active site 452662008385 motif 3; other site 452662008386 ribonuclease D; Region: rnd; TIGR01388 452662008387 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 452662008388 catalytic site [active] 452662008389 putative active site [active] 452662008390 putative substrate binding site [chemical binding]; other site 452662008391 HRDC domain; Region: HRDC; cl02578 452662008392 Potato inhibitor I family; Region: potato_inhibit; cl15459 452662008393 Bacterial PH domain; Region: DUF304; cl01348 452662008394 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 452662008395 Fic/DOC family; Region: Fic; cl00960 452662008396 GTP-binding protein LepA; Provisional; Region: PRK05433 452662008397 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 452662008398 G1 box; other site 452662008399 putative GEF interaction site [polypeptide binding]; other site 452662008400 GTP/Mg2+ binding site [chemical binding]; other site 452662008401 Switch I region; other site 452662008402 G2 box; other site 452662008403 G3 box; other site 452662008404 Switch II region; other site 452662008405 G4 box; other site 452662008406 G5 box; other site 452662008407 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 452662008408 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 452662008409 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 452662008410 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 452662008411 non-specific DNA binding site [nucleotide binding]; other site 452662008412 salt bridge; other site 452662008413 sequence-specific DNA binding site [nucleotide binding]; other site 452662008414 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 452662008415 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 452662008416 Transposase domain (DUF772); Region: DUF772; cl15789 452662008417 Transposase domain (DUF772); Region: DUF772; cl15789 452662008418 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 452662008419 [4Fe-4S] binding site [ion binding]; other site 452662008420 molybdopterin cofactor binding site; other site 452662008421 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 452662008422 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 452662008423 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 452662008424 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 452662008425 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 452662008426 putative PBP binding loops; other site 452662008427 ABC-ATPase subunit interface; other site 452662008428 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 452662008429 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662008430 Walker A/P-loop; other site 452662008431 ATP binding site [chemical binding]; other site 452662008432 Q-loop/lid; other site 452662008433 ABC transporter signature motif; other site 452662008434 Walker B; other site 452662008435 D-loop; other site 452662008436 H-loop/switch region; other site 452662008437 Phosphotransferase enzyme family; Region: APH; pfam01636 452662008438 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 452662008439 active site 452662008440 ATP binding site [chemical binding]; other site 452662008441 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 452662008442 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 452662008443 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 452662008444 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 452662008445 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 452662008446 HIT family signature motif; other site 452662008447 catalytic residue [active] 452662008448 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 452662008449 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 452662008450 Transcriptional regulator [Transcription]; Region: LysR; COG0583 452662008451 Helix-turn-helix domains; Region: HTH; cl00088 452662008452 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 452662008453 dimerization interface [polypeptide binding]; other site 452662008454 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional; Region: PRK11840 452662008455 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 452662008456 thiS-thiF/thiG interaction site; other site 452662008457 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 452662008458 ThiS interaction site; other site 452662008459 putative active site [active] 452662008460 tetramer interface [polypeptide binding]; other site 452662008461 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 452662008462 trimer interface [polypeptide binding]; other site 452662008463 active site 452662008464 dimer interface [polypeptide binding]; other site 452662008465 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 452662008466 carboxyltransferase (CT) interaction site; other site 452662008467 biotinylation site [posttranslational modification]; other site 452662008468 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 452662008469 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 452662008470 ATP-grasp domain; Region: ATP-grasp_4; cl03087 452662008471 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 452662008472 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 452662008473 ArsC family; Region: ArsC; pfam03960 452662008474 catalytic residues [active] 452662008475 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 452662008476 GIY-YIG motif/motif A; other site 452662008477 putative active site [active] 452662008478 putative metal binding site [ion binding]; other site 452662008479 DNA polymerase I; Provisional; Region: PRK05755 452662008480 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 452662008481 active site 452662008482 metal binding site 1 [ion binding]; metal-binding site 452662008483 putative 5' ssDNA interaction site; other site 452662008484 metal binding site 3; metal-binding site 452662008485 metal binding site 2 [ion binding]; metal-binding site 452662008486 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 452662008487 putative DNA binding site [nucleotide binding]; other site 452662008488 putative metal binding site [ion binding]; other site 452662008489 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 452662008490 active site 452662008491 catalytic site [active] 452662008492 substrate binding site [chemical binding]; other site 452662008493 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 452662008494 active site 452662008495 DNA binding site [nucleotide binding] 452662008496 catalytic site [active] 452662008497 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 452662008498 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 452662008499 Substrate binding site; other site 452662008500 Cupin domain; Region: Cupin_2; cl09118 452662008501 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 452662008502 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 452662008503 cysteinyl-tRNA synthetase; Provisional; Region: cysS; PRK14536 452662008504 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 452662008505 active site 452662008506 HIGH motif; other site 452662008507 nucleotide binding site [chemical binding]; other site 452662008508 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 452662008509 active site 452662008510 KMSKS motif; other site 452662008511 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 452662008512 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 452662008513 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 452662008514 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 452662008515 P-loop; other site 452662008516 Magnesium ion binding site [ion binding]; other site 452662008517 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 452662008518 Magnesium ion binding site [ion binding]; other site 452662008519 PAS domain; Region: PAS_9; pfam13426 452662008520 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 452662008521 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 452662008522 metal binding site [ion binding]; metal-binding site 452662008523 active site 452662008524 I-site; other site 452662008525 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 452662008526 acyl-CoA synthetase; Validated; Region: PRK09192 452662008527 AMP-binding enzyme; Region: AMP-binding; cl15778 452662008528 RecX family; Region: RecX; cl00936 452662008529 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 452662008530 NADH ubiquinone oxidoreductase subunit NDUFA12; Region: NDUFA12; cl01534 452662008531 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 452662008532 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 452662008533 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 452662008534 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 452662008535 active site 452662008536 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 452662008537 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 452662008538 active site 452662008539 (T/H)XGH motif; other site 452662008540 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 452662008541 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 452662008542 substrate binding pocket [chemical binding]; other site 452662008543 chain length determination region; other site 452662008544 substrate-Mg2+ binding site; other site 452662008545 catalytic residues [active] 452662008546 aspartate-rich region 1; other site 452662008547 active site lid residues [active] 452662008548 aspartate-rich region 2; other site 452662008549 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 452662008550 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 452662008551 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 452662008552 dimerization interface [polypeptide binding]; other site 452662008553 ATP binding site [chemical binding]; other site 452662008554 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 452662008555 dimerization interface [polypeptide binding]; other site 452662008556 ATP binding site [chemical binding]; other site 452662008557 Dienelactone hydrolase family; Region: DLH; pfam01738 452662008558 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662008559 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 452662008560 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 452662008561 active site 452662008562 Zn binding site [ion binding]; other site 452662008563 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 452662008564 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 452662008565 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 452662008566 motif II; other site 452662008567 pyruvate kinase; Provisional; Region: PRK06247 452662008568 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 452662008569 domain interfaces; other site 452662008570 active site 452662008571 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 452662008572 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 452662008573 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 452662008574 Transcriptional regulator; Region: Transcrip_reg; cl00361 452662008575 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 452662008576 active site 452662008577 putative DNA-binding cleft [nucleotide binding]; other site 452662008578 dimer interface [polypeptide binding]; other site 452662008579 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 452662008580 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 452662008581 HerA helicase [Replication, recombination, and repair]; Region: COG0433 452662008582 Low molecular weight phosphatase family; Region: LMWPc; cd00115 452662008583 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 452662008584 active site 452662008585 S1/P1 Nuclease; Region: S1-P1_nuclease; pfam02265 452662008586 potential frameshift: common BLAST hit: gi|148550571|ref|YP_001260010.1| TonB-dependent receptor 452662008587 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662008588 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662008589 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 452662008590 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 452662008591 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 452662008592 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 452662008593 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 452662008594 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 452662008595 catalytic loop [active] 452662008596 iron binding site [ion binding]; other site 452662008597 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 452662008598 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 452662008599 ThiC-associated domain; Region: ThiC-associated; pfam13667 452662008600 ThiC family; Region: ThiC; cl08031 452662008601 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 452662008602 acetyl-CoA synthetase; Provisional; Region: PRK00174 452662008603 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 452662008604 AMP-binding enzyme; Region: AMP-binding; cl15778 452662008605 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 452662008606 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 452662008607 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 452662008608 C-terminal domain interface [polypeptide binding]; other site 452662008609 GSH binding site (G-site) [chemical binding]; other site 452662008610 dimer interface [polypeptide binding]; other site 452662008611 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 452662008612 N-terminal domain interface [polypeptide binding]; other site 452662008613 dimer interface [polypeptide binding]; other site 452662008614 substrate binding pocket (H-site) [chemical binding]; other site 452662008615 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 452662008616 metal binding site [ion binding]; metal-binding site 452662008617 active site 452662008618 I-site; other site 452662008619 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 452662008620 Helix-turn-helix domains; Region: HTH; cl00088 452662008621 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 452662008622 dimerization interface [polypeptide binding]; other site 452662008623 AAA family ATPase, CDC48 subfamily; Region: CDC48; TIGR01243 452662008624 Cell division protein 48 (CDC48), N-terminal domain; Region: CDC48_N; pfam02359 452662008625 Cell division protein 48 (CDC48), domain 2; Region: CDC48_2; cl08380 452662008626 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 452662008627 Walker A motif; other site 452662008628 ATP binding site [chemical binding]; other site 452662008629 Walker B motif; other site 452662008630 arginine finger; other site 452662008631 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 452662008632 Walker A motif; other site 452662008633 ATP binding site [chemical binding]; other site 452662008634 Walker B motif; other site 452662008635 arginine finger; other site 452662008636 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662008637 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 452662008638 putative catalytic cysteine [active] 452662008639 Integrase core domain; Region: rve; cl01316 452662008640 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 452662008641 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 452662008642 NeuB family; Region: NeuB; cl00496 452662008643 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 452662008644 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 452662008645 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662008646 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 452662008647 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 452662008648 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 452662008649 homodimer interface [polypeptide binding]; other site 452662008650 substrate-cofactor binding pocket; other site 452662008651 catalytic residue [active] 452662008652 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 452662008653 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 452662008654 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 452662008655 catalytic residue [active] 452662008656 EamA-like transporter family; Region: EamA; cl01037 452662008657 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 452662008658 EamA-like transporter family; Region: EamA; cl01037 452662008659 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 452662008660 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662008661 NAD(P) binding site [chemical binding]; other site 452662008662 active site 452662008663 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 452662008664 Domain of unknown function DUF59; Region: DUF59; cl00941 452662008665 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 452662008666 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 452662008667 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 452662008668 catalytic residue [active] 452662008669 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 452662008670 FeS assembly ATPase SufC; Region: sufC; TIGR01978 452662008671 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 452662008672 Walker A/P-loop; other site 452662008673 ATP binding site [chemical binding]; other site 452662008674 Q-loop/lid; other site 452662008675 ABC transporter signature motif; other site 452662008676 Walker B; other site 452662008677 D-loop; other site 452662008678 H-loop/switch region; other site 452662008679 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 452662008680 putative active site [active] 452662008681 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 452662008682 putative ABC transporter; Region: ycf24; CHL00085 452662008683 Rrf2 family protein; Region: rrf2_super; TIGR00738 452662008684 Helix-turn-helix domains; Region: HTH; cl00088 452662008685 Helix-turn-helix domain; Region: HTH_18; pfam12833 452662008686 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 452662008687 quinone interaction residues [chemical binding]; other site 452662008688 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 452662008689 active site 452662008690 catalytic residues [active] 452662008691 FMN binding site [chemical binding]; other site 452662008692 substrate binding site [chemical binding]; other site 452662008693 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 452662008694 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 452662008695 Fe-S metabolism associated domain; Region: SufE; cl00951 452662008696 phage shock protein C; Region: phageshock_pspC; TIGR02978 452662008697 PspC domain; Region: PspC; cl00864 452662008698 Phage shock protein B; Region: PspB; cl05946 452662008699 phage shock protein A; Region: phageshock_pspA; TIGR02977 452662008700 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 452662008701 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 452662008702 Walker A motif; other site 452662008703 ATP binding site [chemical binding]; other site 452662008704 Walker B motif; other site 452662008705 arginine finger; other site 452662008706 Helix-turn-helix domains; Region: HTH; cl00088 452662008707 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 452662008708 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662008709 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 452662008710 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 452662008711 active site 452662008712 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 452662008713 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 452662008714 translocation protein TolB; Provisional; Region: tolB; PRK05137 452662008715 TolB amino-terminal domain; Region: TolB_N; cl00639 452662008716 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 452662008717 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 452662008718 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 452662008719 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 452662008720 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 452662008721 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 452662008722 ligand binding site [chemical binding]; other site 452662008723 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 452662008724 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 452662008725 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662008726 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662008727 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 452662008728 Fusaric acid resistance protein family; Region: FUSC; pfam04632 452662008729 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 452662008730 may be target duplication site 452662008731 Integrase core domain; Region: rve; cl01316 452662008732 DDE domain; Region: DDE_Tnp_IS240; pfam13610 452662008733 Integrase core domain; Region: rve; cl01316 452662008734 may be target duplication site 452662008735 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 452662008736 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 452662008737 Helix-turn-helix domains; Region: HTH; cl00088 452662008738 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 452662008739 RelB antitoxin; Region: RelB; cl01171 452662008740 DDE domain; Region: DDE_Tnp_IS240; pfam13610 452662008741 Integrase core domain; Region: rve; cl01316 452662008742 DDE domain; Region: DDE_Tnp_IS240; pfam13610 452662008743 Integrase core domain; Region: rve; cl01316 452662008744 Helix-turn-helix domains; Region: HTH; cl00088 452662008745 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 452662008746 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 452662008747 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 452662008748 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 452662008749 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 452662008750 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 452662008751 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 452662008752 PA_M28_1_1: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 1. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_1; cd04820 452662008753 PA/protease or protease-like domain interface [polypeptide binding]; other site 452662008754 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_2; cd05661 452662008755 metal binding site [ion binding]; metal-binding site 452662008756 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 452662008757 Clp amino terminal domain; Region: Clp_N; pfam02861 452662008758 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 452662008759 Walker A motif; other site 452662008760 ATP binding site [chemical binding]; other site 452662008761 Walker B motif; other site 452662008762 arginine finger; other site 452662008763 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 452662008764 Walker A motif; other site 452662008765 ATP binding site [chemical binding]; other site 452662008766 Walker B motif; other site 452662008767 arginine finger; other site 452662008768 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 452662008769 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 452662008770 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 452662008771 binding surface 452662008772 TPR motif; other site 452662008773 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 452662008774 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 452662008775 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662008776 Peptidase family M23; Region: Peptidase_M23; pfam01551 452662008777 Uncharacterized protein conserved in bacteria (DUF2093); Region: DUF2093; cl11535 452662008778 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 452662008779 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 452662008780 generic binding surface II; other site 452662008781 generic binding surface I; other site 452662008782 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 452662008783 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 452662008784 ATP-grasp domain; Region: ATP-grasp_4; cl03087 452662008785 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 452662008786 Uncharacterized conserved protein [Function unknown]; Region: COG3743 452662008787 OpgC protein; Region: OpgC_C; cl00792 452662008788 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 452662008789 active site 452662008790 catalytic triad [active] 452662008791 oxyanion hole [active] 452662008792 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 452662008793 AsmA-like C-terminal region; Region: AsmA_2; cl15864 452662008794 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 452662008795 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 452662008796 23S rRNA binding site [nucleotide binding]; other site 452662008797 L21 binding site [polypeptide binding]; other site 452662008798 L13 binding site [polypeptide binding]; other site 452662008799 LysE type translocator; Region: LysE; cl00565 452662008800 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 452662008801 GIY-YIG motif/motif A; other site 452662008802 putative active site [active] 452662008803 putative metal binding site [ion binding]; other site 452662008804 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 452662008805 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 452662008806 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 452662008807 dimer interface [polypeptide binding]; other site 452662008808 motif 1; other site 452662008809 active site 452662008810 motif 2; other site 452662008811 motif 3; other site 452662008812 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 452662008813 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 452662008814 putative tRNA-binding site [nucleotide binding]; other site 452662008815 B3/4 domain; Region: B3_4; cl11458 452662008816 tRNA synthetase B5 domain; Region: B5; cl08394 452662008817 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 452662008818 dimer interface [polypeptide binding]; other site 452662008819 motif 1; other site 452662008820 motif 3; other site 452662008821 motif 2; other site 452662008822 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 452662008823 Domain of unknown function (DUF4386); Region: DUF4386; pfam14329 452662008824 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 452662008825 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 452662008826 active site 452662008827 catalytic residues [active] 452662008828 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 452662008829 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 452662008830 G1 box; other site 452662008831 putative GEF interaction site [polypeptide binding]; other site 452662008832 GTP/Mg2+ binding site [chemical binding]; other site 452662008833 Switch I region; other site 452662008834 G2 box; other site 452662008835 G3 box; other site 452662008836 Switch II region; other site 452662008837 G4 box; other site 452662008838 G5 box; other site 452662008839 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 452662008840 hypothetical protein; Provisional; Region: PRK07064 452662008841 Protein of unknown function (DUF1134); Region: DUF1134; cl02235 452662008842 Y-family of DNA polymerases; Region: PolY; cl12025 452662008843 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 452662008844 active site 452662008845 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 452662008846 Ubiquinol-cytochrome C chaperone; Region: Ubiq_cyt_C_chap; cl12045 452662008847 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 452662008848 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 452662008849 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662008850 NAD(P) binding site [chemical binding]; other site 452662008851 active site 452662008852 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 452662008853 ATP-grasp domain; Region: ATP-grasp_4; cl03087 452662008854 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 452662008855 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 452662008856 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 452662008857 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 452662008858 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 452662008859 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 452662008860 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 452662008861 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 452662008862 putative ADP-binding pocket [chemical binding]; other site 452662008863 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl12051 452662008864 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 452662008865 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 452662008866 SLBB domain; Region: SLBB; pfam10531 452662008867 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 452662008868 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 452662008869 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 452662008870 inhibitor-cofactor binding pocket; inhibition site 452662008871 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452662008872 catalytic residue [active] 452662008873 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 452662008874 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 452662008875 NAD(P) binding site [chemical binding]; other site 452662008876 homodimer interface [polypeptide binding]; other site 452662008877 substrate binding site [chemical binding]; other site 452662008878 active site 452662008879 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 452662008880 putative ADP-binding pocket [chemical binding]; other site 452662008881 Bacterial sugar transferase; Region: Bac_transf; cl00939 452662008882 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 452662008883 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_4; cd08651 452662008884 putative active site [active] 452662008885 putative substrate binding site [chemical binding]; other site 452662008886 putative cosubstrate binding site; other site 452662008887 catalytic site [active] 452662008888 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 452662008889 active site 452662008890 hexamer interface [polypeptide binding]; other site 452662008891 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 452662008892 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 452662008893 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 452662008894 active site 452662008895 phosphorylation site [posttranslational modification] 452662008896 intermolecular recognition site; other site 452662008897 dimerization interface [polypeptide binding]; other site 452662008898 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 452662008899 DNA binding residues [nucleotide binding] 452662008900 dimerization interface [polypeptide binding]; other site 452662008901 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 452662008902 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 452662008903 Ca2+ binding site [ion binding]; other site 452662008904 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 452662008905 Ca2+ binding site [ion binding]; other site 452662008906 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 452662008907 Ca2+ binding site [ion binding]; other site 452662008908 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 452662008909 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 452662008910 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662008911 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 452662008912 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662008913 Walker A/P-loop; other site 452662008914 ATP binding site [chemical binding]; other site 452662008915 Q-loop/lid; other site 452662008916 ABC transporter signature motif; other site 452662008917 Walker B; other site 452662008918 D-loop; other site 452662008919 H-loop/switch region; other site 452662008920 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 452662008921 Pectate lyase; Region: Pec_lyase_C; cl01593 452662008922 Chain length determinant protein; Region: Wzz; cl15801 452662008923 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 452662008924 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 452662008925 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 452662008926 DNA binding residues [nucleotide binding] 452662008927 dimerization interface [polypeptide binding]; other site 452662008928 Flavin Reductases; Region: FlaRed; cl00801 452662008929 Transposase domain (DUF772); Region: DUF772; cl15789 452662008930 Transposase domain (DUF772); Region: DUF772; cl15789 452662008931 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 452662008932 Malic enzyme, N-terminal domain; Region: malic; pfam00390 452662008933 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 452662008934 putative NAD(P) binding site [chemical binding]; other site 452662008935 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 452662008936 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 452662008937 MutS domain I; Region: MutS_I; pfam01624 452662008938 MutS domain II; Region: MutS_II; pfam05188 452662008939 MutS family domain IV; Region: MutS_IV; pfam05190 452662008940 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 452662008941 Walker A/P-loop; other site 452662008942 ATP binding site [chemical binding]; other site 452662008943 Q-loop/lid; other site 452662008944 ABC transporter signature motif; other site 452662008945 Walker B; other site 452662008946 D-loop; other site 452662008947 H-loop/switch region; other site 452662008948 PII uridylyl-transferase; Provisional; Region: PRK05092 452662008949 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 452662008950 metal binding triad; other site 452662008951 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 452662008952 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 452662008953 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 452662008954 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 452662008955 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 452662008956 Integrase core domain; Region: rve; cl01316 452662008957 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 452662008958 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 452662008959 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 452662008960 dimerization interface [polypeptide binding]; other site 452662008961 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 452662008962 active site 452662008963 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 452662008964 putative catalytic site [active] 452662008965 putative phosphate binding site [ion binding]; other site 452662008966 active site 452662008967 metal binding site A [ion binding]; metal-binding site 452662008968 DNA binding site [nucleotide binding] 452662008969 putative AP binding site [nucleotide binding]; other site 452662008970 putative metal binding site B [ion binding]; other site 452662008971 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 452662008972 DsrE/DsrF-like family; Region: DrsE; cl00672 452662008973 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 452662008974 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 452662008975 ATP binding site [chemical binding]; other site 452662008976 substrate interface [chemical binding]; other site 452662008977 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 452662008978 trimer interface [polypeptide binding]; other site 452662008979 active site 452662008980 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 452662008981 Flavoprotein; Region: Flavoprotein; cl08021 452662008982 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 452662008983 TIGR03440 family protein; Region: unchr_TIGR03440 452662008984 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 452662008985 probable methyltransferase; Region: TIGR03438 452662008986 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 452662008987 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 452662008988 nucleoside transporter; Region: nupC; TIGR00804 452662008989 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 452662008990 Nucleoside recognition; Region: Gate; cl00486 452662008991 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 452662008992 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 452662008993 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662008994 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 452662008995 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 452662008996 Coenzyme A binding pocket [chemical binding]; other site 452662008997 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 452662008998 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 452662008999 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 452662009000 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 452662009001 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 452662009002 active site 452662009003 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 452662009004 substrate binding site [chemical binding]; other site 452662009005 metal binding site [ion binding]; metal-binding site 452662009006 DnaJ chaperone protein; Provisional; Region: PTZ00100 452662009007 ATPase MipZ; Region: MipZ; pfam09140 452662009008 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 452662009009 P-loop; other site 452662009010 Magnesium ion binding site [ion binding]; other site 452662009011 pantoate--beta-alanine ligase; Region: panC; TIGR00018 452662009012 Pantoate-beta-alanine ligase; Region: PanC; cd00560 452662009013 active site 452662009014 ATP-binding site [chemical binding]; other site 452662009015 pantoate-binding site; other site 452662009016 HXXH motif; other site 452662009017 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 452662009018 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 452662009019 methyltransferase, MtaA/CmuA family; Region: mtaA_cmuA; TIGR01463 452662009020 substrate binding site [chemical binding]; other site 452662009021 active site 452662009022 Initiator Replication protein; Region: Rep_3; cl03080 452662009023 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 452662009024 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 452662009025 DNA binding residues [nucleotide binding] 452662009026 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 452662009027 P-loop; other site 452662009028 Magnesium ion binding site [ion binding]; other site 452662009029 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 452662009030 Magnesium ion binding site [ion binding]; other site 452662009031 ParB-like partition proteins; Region: parB_part; TIGR00180 452662009032 ParB-like nuclease domain; Region: ParBc; cl02129 452662009033 RES domain; Region: RES; cl02411 452662009034 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 452662009035 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 452662009036 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 452662009037 multiple promoter invertase; Provisional; Region: mpi; PRK13413 452662009038 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 452662009039 catalytic residues [active] 452662009040 catalytic nucleophile [active] 452662009041 Presynaptic Site I dimer interface [polypeptide binding]; other site 452662009042 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 452662009043 Synaptic Flat tetramer interface [polypeptide binding]; other site 452662009044 Synaptic Site I dimer interface [polypeptide binding]; other site 452662009045 DNA binding site [nucleotide binding] 452662009046 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 452662009047 DNA-binding interface [nucleotide binding]; DNA binding site 452662009048 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 452662009049 classical (c) SDRs; Region: SDR_c; cd05233 452662009050 NAD(P) binding site [chemical binding]; other site 452662009051 active site 452662009052 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 452662009053 Protein of unknown function (DUF497); Region: DUF497; cl01108 452662009054 Integrase core domain; Region: rve; cl01316 452662009055 DDE domain; Region: DDE_Tnp_IS240; pfam13610 452662009056 Integrase core domain; Region: rve; cl01316 452662009057 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 452662009058 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 452662009059 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 452662009060 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 452662009061 N-acetyl-D-glucosamine binding site [chemical binding]; other site 452662009062 catalytic residue [active] 452662009063 may be target duplication site 452662009064 Integrase core domain; Region: rve; cl01316 452662009065 DDE domain; Region: DDE_Tnp_IS240; pfam13610 452662009066 Integrase core domain; Region: rve; cl01316 452662009067 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 452662009068 may be target duplication site 452662009069 recognition site for restriction enzyme PmeI 452662009070 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 452662009071 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 452662009072 active site 452662009073 DNA binding site [nucleotide binding] 452662009074 Int/Topo IB signature motif; other site 452662009075 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 452662009076 catalytic core [active] 452662009077 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 452662009078 RelB antitoxin; Region: RelB; cl01171 452662009079 SprT homologues; Region: SprT; cl01182 452662009080 recognition site for restriction enzyme PmeI 452662009081 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 452662009082 ParA-like protein; Provisional; Region: PHA02518 452662009083 P-loop; other site 452662009084 Magnesium ion binding site [ion binding]; other site 452662009085 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 452662009086 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 452662009087 Coenzyme A binding pocket [chemical binding]; other site 452662009088 Replication initiator protein A; Region: RPA; cl02339 452662009089 Integrase core domain; Region: rve; cl01316 452662009090 DDE domain; Region: DDE_Tnp_IS240; pfam13610 452662009091 Integrase core domain; Region: rve; cl01316 452662009092 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 452662009093 Active Sites [active] 452662009094 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 452662009095 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; cl15754 452662009096 cofactor binding site; other site 452662009097 DNA binding site [nucleotide binding] 452662009098 substrate interaction site [chemical binding]; other site 452662009099 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 452662009100 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 452662009101 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 452662009102 putative active site [active] 452662009103 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 452662009104 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 452662009105 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 452662009106 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 452662009107 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662009108 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662009109 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662009110 ParB-like nuclease domain; Region: ParBc; cl02129 452662009111 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 452662009112 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 452662009113 Predicted transcriptional regulator [Transcription]; Region: COG4957 452662009114 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 452662009115 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 452662009116 putative active site [active] 452662009117 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 452662009118 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 452662009119 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 452662009120 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 452662009121 IHF dimer interface [polypeptide binding]; other site 452662009122 IHF - DNA interface [nucleotide binding]; other site 452662009123 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 452662009124 putative NAD(P) binding site [chemical binding]; other site 452662009125 Protein of unknown function (DUF1810); Region: DUF1810; cl02370 452662009126 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 452662009127 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 452662009128 putative active site [active] 452662009129 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 452662009130 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 452662009131 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 452662009132 FecR protein; Region: FecR; pfam04773 452662009133 Secretin and TonB N terminus short domain; Region: STN; cl06624 452662009134 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 452662009135 N-terminal plug; other site 452662009136 ligand-binding site [chemical binding]; other site 452662009137 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 452662009138 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662009139 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 452662009140 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 452662009141 Ligand Binding Site [chemical binding]; other site 452662009142 Molecular Tunnel; other site 452662009143 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 452662009144 Transcriptional regulators [Transcription]; Region: GntR; COG1802 452662009145 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 452662009146 DNA-binding site [nucleotide binding]; DNA binding site 452662009147 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 452662009148 non-specific DNA binding site [nucleotide binding]; other site 452662009149 salt bridge; other site 452662009150 sequence-specific DNA binding site [nucleotide binding]; other site 452662009151 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 452662009152 dimerization domain [polypeptide binding]; other site 452662009153 dimer interface [polypeptide binding]; other site 452662009154 catalytic residues [active] 452662009155 TraE protein; Region: TraE; cl05060 452662009156 TraK protein; Region: TraK; pfam06586 452662009157 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 452662009158 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 452662009159 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 452662009160 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 452662009161 TraU protein; Region: TraU; cl06067 452662009162 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 452662009163 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; cl09883 452662009164 Type IV secretory pathway, protease TraF [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: TraF; COG4959 452662009165 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 452662009166 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 452662009167 catalytic residues [active] 452662009168 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 452662009169 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 452662009170 Conjugative relaxosome accessory transposon protein; Region: TraH; cl05580 452662009171 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 452662009172 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 452662009173 metal-binding site 452662009174 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 452662009175 N-terminal domain interface [polypeptide binding]; other site 452662009176 HPP family; Region: HPP; pfam04982 452662009177 glutathione reductase; Validated; Region: PRK06116 452662009178 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 452662009179 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 452662009180 Predicted esterase [General function prediction only]; Region: COG0627 452662009181 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662009182 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 452662009183 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 452662009184 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 452662009185 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 452662009186 substrate binding site [chemical binding]; other site 452662009187 catalytic Zn binding site [ion binding]; other site 452662009188 NAD binding site [chemical binding]; other site 452662009189 structural Zn binding site [ion binding]; other site 452662009190 dimer interface [polypeptide binding]; other site 452662009191 Transcriptional regulator [Transcription]; Region: LysR; COG0583 452662009192 Helix-turn-helix domains; Region: HTH; cl00088 452662009193 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 452662009194 dimerization interface [polypeptide binding]; other site 452662009195 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 452662009196 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 452662009197 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 452662009198 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 452662009199 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 452662009200 FMN-binding pocket [chemical binding]; other site 452662009201 flavin binding motif; other site 452662009202 phosphate binding motif [ion binding]; other site 452662009203 beta-alpha-beta structure motif; other site 452662009204 NAD binding pocket [chemical binding]; other site 452662009205 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 452662009206 catalytic loop [active] 452662009207 iron binding site [ion binding]; other site 452662009208 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 452662009209 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 452662009210 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 452662009211 N-terminal domain interface [polypeptide binding]; other site 452662009212 YCII-related domain; Region: YCII; cl00999 452662009213 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 452662009214 Predicted esterase [General function prediction only]; Region: COG0400 452662009215 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662009216 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 452662009217 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662009218 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 452662009219 Zn binding site [ion binding]; other site 452662009220 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 452662009221 Zn binding site [ion binding]; other site 452662009222 Transcriptional regulator [Transcription]; Region: LysR; COG0583 452662009223 Helix-turn-helix domains; Region: HTH; cl00088 452662009224 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 452662009225 substrate binding pocket [chemical binding]; other site 452662009226 dimerization interface [polypeptide binding]; other site 452662009227 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 452662009228 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662009229 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662009230 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 452662009231 iron-sulfur cluster [ion binding]; other site 452662009232 [2Fe-2S] cluster binding site [ion binding]; other site 452662009233 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 452662009234 alpha subunit interface [polypeptide binding]; other site 452662009235 active site 452662009236 substrate binding site [chemical binding]; other site 452662009237 Fe binding site [ion binding]; other site 452662009238 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 452662009239 active site 452662009240 Cupin domain; Region: Cupin_2; cl09118 452662009241 Transcriptional regulator [Transcription]; Region: LysR; COG0583 452662009242 Helix-turn-helix domains; Region: HTH; cl00088 452662009243 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 452662009244 dimerization interface [polypeptide binding]; other site 452662009245 Integrase core domain; Region: rve; cl01316 452662009246 DDE domain; Region: DDE_Tnp_IS240; pfam13610 452662009247 Integrase core domain; Region: rve; cl01316 452662009248 Helix-turn-helix domains; Region: HTH; cl00088 452662009249 Transposase domain (DUF772); Region: DUF772; cl15789 452662009250 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 452662009251 Transposase domain (DUF772); Region: DUF772; cl15789 452662009252 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 452662009253 Helix-turn-helix domains; Region: HTH; cl00088 452662009254 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 452662009255 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 452662009256 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 452662009257 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 452662009258 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 452662009259 Helix-turn-helix domains; Region: HTH; cl00088 452662009260 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 452662009261 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 452662009262 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 452662009263 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662009264 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662009265 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 452662009266 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 452662009267 putative substrate translocation pore; other site 452662009268 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 452662009269 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 452662009270 Helix-turn-helix domains; Region: HTH; cl00088 452662009271 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 452662009272 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 452662009273 Helix-turn-helix domains; Region: HTH; cl00088 452662009274 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 452662009275 dimerization interface [polypeptide binding]; other site 452662009276 substrate binding pocket [chemical binding]; other site 452662009277 Protein of unknown function (DUF2274); Region: DUF2274; cl02406 452662009278 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 452662009279 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 452662009280 VirB7 interaction site; other site 452662009281 VirB8 protein; Region: VirB8; cl01500 452662009282 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 452662009283 conjugal transfer protein TrbL; Provisional; Region: PRK13875 452662009284 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 452662009285 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 452662009286 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 452662009287 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 452662009288 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 452662009289 TrbC/VIRB2 family; Region: TrbC; cl01583 452662009290 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 452662009291 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662009292 Walker A motif; other site 452662009293 ATP binding site [chemical binding]; other site 452662009294 Walker B motif; other site 452662009295 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 452662009296 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 452662009297 Walker A motif; other site 452662009298 ATP binding site [chemical binding]; other site 452662009299 Walker B motif; other site 452662009300 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 452662009301 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 452662009302 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 452662009303 N-acetyl-D-glucosamine binding site [chemical binding]; other site 452662009304 catalytic residue [active] 452662009305 Protein of unknown function (DUF736); Region: DUF736; cl02303 452662009306 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 452662009307 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 452662009308 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 452662009309 ParA-like protein; Provisional; Region: PHA02518 452662009310 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 452662009311 P-loop; other site 452662009312 Magnesium ion binding site [ion binding]; other site 452662009313 Replication initiator protein A; Region: RPA; cl02339 452662009314 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 452662009315 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 452662009316 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 452662009317 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 452662009318 Protein of unknown function (DUF736); Region: DUF736; cl02303 452662009319 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 452662009320 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 452662009321 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 452662009322 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662009323 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662009324 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662009325 enoyl-CoA hydratase; Provisional; Region: PRK07468 452662009326 ParB-like nuclease domain; Region: ParBc; cl02129 452662009327 plasmid partitioning protein; Provisional; Region: PRK13832 452662009328 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 452662009329 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 452662009330 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 452662009331 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 452662009332 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 452662009333 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 452662009334 active site 452662009335 DNA binding site [nucleotide binding] 452662009336 Int/Topo IB signature motif; other site 452662009337 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 452662009338 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 452662009339 ParB-like nuclease domain; Region: ParBc; cl02129 452662009340 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 452662009341 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662009342 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662009343 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 452662009344 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 452662009345 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 452662009346 dimer interface [polypeptide binding]; other site 452662009347 ssDNA binding site [nucleotide binding]; other site 452662009348 tetramer (dimer of dimers) interface [polypeptide binding]; other site 452662009349 Helix-turn-helix domains; Region: HTH; cl00088 452662009350 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 452662009351 DNA binding residues [nucleotide binding] 452662009352 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 452662009353 MobA/MobL family; Region: MobA_MobL; pfam03389 452662009354 TopoisomeraseII; Region: TOP2c; smart00433 452662009355 PemK-like protein; Region: PemK; cl00995 452662009356 Protein of unknown function (DUF3018); Region: DUF3018; pfam11455 452662009357 Replication initiator protein A; Region: RPA; cl02339 452662009358 Predicted transcriptional regulator [Transcription]; Region: COG4957 452662009359 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 452662009360 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 452662009361 IHF - DNA interface [nucleotide binding]; other site 452662009362 IHF dimer interface [polypeptide binding]; other site 452662009363 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 452662009364 Surface antigen; Region: Bac_surface_Ag; cl03097 452662009365 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 452662009366 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 452662009367 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 452662009368 ParB-like partition proteins; Region: parB_part; TIGR00180 452662009369 ParB-like nuclease domain; Region: ParBc; cl02129 452662009370 quinohemoprotein amine dehydrogenase, alpha subunit; Region: QH_alpha; TIGR03908 452662009371 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 452662009372 Moco binding site; other site 452662009373 metal coordination site [ion binding]; other site 452662009374 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 452662009375 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 452662009376 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 452662009377 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 452662009378 NADP binding site [chemical binding]; other site 452662009379 active site 452662009380 putative substrate binding site [chemical binding]; other site 452662009381 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: GT1_like_1; cd04950 452662009382 putative homodimer interface [polypeptide binding]; other site 452662009383 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 452662009384 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662009385 UDP-galactopyranose mutase; Region: GLF; pfam03275 452662009386 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 452662009387 Predicted membrane protein [Function unknown]; Region: COG4655 452662009388 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 452662009389 binding surface 452662009390 TPR motif; other site 452662009391 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 452662009392 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 452662009393 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 452662009394 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 452662009395 ATP binding site [chemical binding]; other site 452662009396 Walker A motif; other site 452662009397 hexamer interface [polypeptide binding]; other site 452662009398 Walker B motif; other site 452662009399 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 452662009400 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 452662009401 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 452662009402 SAF domain; Region: SAF; cl00555 452662009403 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 452662009404 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 452662009405 dimer interface [polypeptide binding]; other site 452662009406 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 452662009407 active site 452662009408 Fe binding site [ion binding]; other site 452662009409 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 452662009410 cofactor binding site; other site 452662009411 metal binding site [ion binding]; metal-binding site 452662009412 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 452662009413 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 452662009414 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 452662009415 putative substrate translocation pore; other site 452662009416 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 452662009417 putative acyl-acceptor binding pocket; other site 452662009418 AMP-binding enzyme; Region: AMP-binding; cl15778 452662009419 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 452662009420 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 452662009421 Helix-turn-helix domains; Region: HTH; cl00088 452662009422 WHG domain; Region: WHG; pfam13305 452662009423 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 452662009424 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 452662009425 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 452662009426 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 452662009427 response regulator FixJ; Provisional; Region: fixJ; PRK09390 452662009428 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 452662009429 active site 452662009430 phosphorylation site [posttranslational modification] 452662009431 intermolecular recognition site; other site 452662009432 dimerization interface [polypeptide binding]; other site 452662009433 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 452662009434 DNA binding residues [nucleotide binding] 452662009435 dimerization interface [polypeptide binding]; other site 452662009436 PAS domain S-box; Region: sensory_box; TIGR00229 452662009437 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 452662009438 putative active site [active] 452662009439 heme pocket [chemical binding]; other site 452662009440 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 452662009441 dimer interface [polypeptide binding]; other site 452662009442 phosphorylation site [posttranslational modification] 452662009443 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 452662009444 ATP binding site [chemical binding]; other site 452662009445 Mg2+ binding site [ion binding]; other site 452662009446 G-X-G motif; other site 452662009447 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 452662009448 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 452662009449 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 452662009450 N-terminal plug; other site 452662009451 ligand-binding site [chemical binding]; other site 452662009452 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 452662009453 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 452662009454 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 452662009455 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 452662009456 active site 452662009457 metal binding site [ion binding]; metal-binding site 452662009458 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 452662009459 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 452662009460 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 452662009461 tetrameric interface [polypeptide binding]; other site 452662009462 NAD binding site [chemical binding]; other site 452662009463 catalytic residues [active] 452662009464 Transcriptional regulator [Transcription]; Region: LysR; COG0583 452662009465 Helix-turn-helix domains; Region: HTH; cl00088 452662009466 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 452662009467 dimerization interface [polypeptide binding]; other site 452662009468 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662009469 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 452662009470 active site 452662009471 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 452662009472 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 452662009473 CysD dimerization site [polypeptide binding]; other site 452662009474 G1 box; other site 452662009475 putative GEF interaction site [polypeptide binding]; other site 452662009476 GTP/Mg2+ binding site [chemical binding]; other site 452662009477 Switch I region; other site 452662009478 G2 box; other site 452662009479 G3 box; other site 452662009480 Switch II region; other site 452662009481 G4 box; other site 452662009482 G5 box; other site 452662009483 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 452662009484 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 452662009485 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 452662009486 ligand-binding site [chemical binding]; other site 452662009487 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 452662009488 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 452662009489 Active Sites [active] 452662009490 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 452662009491 Helix-turn-helix domains; Region: HTH; cl00088 452662009492 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 452662009493 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 452662009494 FeS/SAM binding site; other site 452662009495 HemN C-terminal domain; Region: HemN_C; pfam06969 452662009496 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 452662009497 recognition site for restriction enzyme PmeI 452662009498 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 452662009499 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 452662009500 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 452662009501 ligand binding site [chemical binding]; other site 452662009502 flexible hinge region; other site 452662009503 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 452662009504 non-specific DNA interactions [nucleotide binding]; other site 452662009505 DNA binding site [nucleotide binding] 452662009506 sequence specific DNA binding site [nucleotide binding]; other site 452662009507 putative cAMP binding site [chemical binding]; other site 452662009508 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 452662009509 Low-spin heme binding site [chemical binding]; other site 452662009510 Putative water exit pathway; other site 452662009511 Binuclear center (active site) [active] 452662009512 Putative proton exit pathway; other site 452662009513 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 452662009514 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 452662009515 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 452662009516 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 452662009517 Cytochrome c; Region: Cytochrom_C; cl11414 452662009518 Cytochrome c; Region: Cytochrom_C; cl11414 452662009519 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 452662009520 4Fe-4S binding domain; Region: Fer4_5; pfam12801 452662009521 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 452662009522 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 452662009523 FixH; Region: FixH; cl01254 452662009524 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 452662009525 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 452662009526 metal-binding site [ion binding] 452662009527 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 452662009528 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 452662009529 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 452662009530 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 452662009531 Proline dehydrogenase; Region: Pro_dh; cl03282 452662009532 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 452662009533 Glutamate binding site [chemical binding]; other site 452662009534 NAD binding site [chemical binding]; other site 452662009535 catalytic residues [active] 452662009536 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 452662009537 active site 452662009538 catalytic triad [active] 452662009539 oxyanion hole [active] 452662009540 switch loop; other site 452662009541 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 452662009542 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 452662009543 Walker A/P-loop; other site 452662009544 ATP binding site [chemical binding]; other site 452662009545 Q-loop/lid; other site 452662009546 ABC transporter signature motif; other site 452662009547 Walker B; other site 452662009548 D-loop; other site 452662009549 H-loop/switch region; other site 452662009550 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 452662009551 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 452662009552 dimer interface [polypeptide binding]; other site 452662009553 phosphorylation site [posttranslational modification] 452662009554 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 452662009555 ATP binding site [chemical binding]; other site 452662009556 Mg2+ binding site [ion binding]; other site 452662009557 G-X-G motif; other site 452662009558 Response regulator receiver domain; Region: Response_reg; pfam00072 452662009559 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 452662009560 active site 452662009561 phosphorylation site [posttranslational modification] 452662009562 intermolecular recognition site; other site 452662009563 dimerization interface [polypeptide binding]; other site 452662009564 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 452662009565 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 452662009566 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 452662009567 N-terminal plug; other site 452662009568 ligand-binding site [chemical binding]; other site 452662009569 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 452662009570 PAS domain; Region: PAS_9; pfam13426 452662009571 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 452662009572 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 452662009573 dimer interface [polypeptide binding]; other site 452662009574 phosphorylation site [posttranslational modification] 452662009575 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 452662009576 ATP binding site [chemical binding]; other site 452662009577 Mg2+ binding site [ion binding]; other site 452662009578 G-X-G motif; other site 452662009579 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 452662009580 Response regulator receiver domain; Region: Response_reg; pfam00072 452662009581 active site 452662009582 phosphorylation site [posttranslational modification] 452662009583 intermolecular recognition site; other site 452662009584 dimerization interface [polypeptide binding]; other site 452662009585 circadian clock protein KaiC; Reviewed; Region: PRK09302 452662009586 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662009587 Walker A motif; other site 452662009588 ATP binding site [chemical binding]; other site 452662009589 Walker B motif; other site 452662009590 KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea; Region: KaiC; cd01124 452662009591 Walker A motif; other site 452662009592 ATP binding site [chemical binding]; other site 452662009593 Walker B motif; other site 452662009594 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 452662009595 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 452662009596 ligand binding site [chemical binding]; other site 452662009597 flexible hinge region; other site 452662009598 Helix-turn-helix domains; Region: HTH; cl00088 452662009599 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 452662009600 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 452662009601 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 452662009602 Transcriptional regulators [Transcription]; Region: GntR; COG1802 452662009603 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 452662009604 DNA-binding site [nucleotide binding]; DNA binding site 452662009605 FCD domain; Region: FCD; cl11656 452662009606 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 452662009607 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 452662009608 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 452662009609 active site 452662009610 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 452662009611 D-galactonate transporter; Region: 2A0114; TIGR00893 452662009612 putative substrate translocation pore; other site 452662009613 Cytochrome c; Region: Cytochrom_C; cl11414 452662009614 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 452662009615 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 452662009616 active site 452662009617 NAD binding site [chemical binding]; other site 452662009618 metal binding site [ion binding]; metal-binding site 452662009619 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 452662009620 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 452662009621 tetramerization interface [polypeptide binding]; other site 452662009622 NAD(P) binding site [chemical binding]; other site 452662009623 catalytic residues [active] 452662009624 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 452662009625 Trp docking motif [polypeptide binding]; other site 452662009626 putative active site [active] 452662009627 Cytochrome c [Energy production and conversion]; Region: COG3258 452662009628 Cytochrome c; Region: Cytochrom_C; cl11414 452662009629 enoyl-CoA hydratase; Provisional; Region: PRK06144 452662009630 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 452662009631 substrate binding site [chemical binding]; other site 452662009632 oxyanion hole (OAH) forming residues; other site 452662009633 trimer interface [polypeptide binding]; other site 452662009634 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 452662009635 CoA-transferase family III; Region: CoA_transf_3; pfam02515 452662009636 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 452662009637 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 452662009638 Trp docking motif [polypeptide binding]; other site 452662009639 putative active site [active] 452662009640 Cytochrome c; Region: Cytochrom_C; cl11414 452662009641 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 452662009642 Cupin domain; Region: Cupin_2; cl09118 452662009643 Cupin domain; Region: Cupin_2; cl09118 452662009644 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 452662009645 D-galactonate transporter; Region: 2A0114; TIGR00893 452662009646 putative substrate translocation pore; other site 452662009647 Cupin domain; Region: Cupin_2; cl09118 452662009648 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 452662009649 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662009650 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 452662009651 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662009652 threonine and homoserine efflux system; Provisional; Region: PRK10532 452662009653 EamA-like transporter family; Region: EamA; cl01037 452662009654 recognition site for restriction enzyme I-CeuI 452662009655 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 452662009656 FAD binding domain; Region: FAD_binding_3; pfam01494 452662009657 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662009658 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662009659 Transcriptional regulator [Transcription]; Region: LysR; COG0583 452662009660 Helix-turn-helix domains; Region: HTH; cl00088 452662009661 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 452662009662 substrate binding pocket [chemical binding]; other site 452662009663 dimerization interface [polypeptide binding]; other site 452662009664 benzoate transport; Region: 2A0115; TIGR00895 452662009665 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 452662009666 putative substrate translocation pore; other site 452662009667 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 452662009668 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 452662009669 N-terminal plug; other site 452662009670 ligand-binding site [chemical binding]; other site 452662009671 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662009672 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 452662009673 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662009674 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 452662009675 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 452662009676 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 452662009677 putative active site [active] 452662009678 putative substrate binding site [chemical binding]; other site 452662009679 putative cosubstrate binding site; other site 452662009680 catalytic site [active] 452662009681 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 452662009682 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 452662009683 N-terminal plug; other site 452662009684 ligand-binding site [chemical binding]; other site 452662009685 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 452662009686 active site 452662009687 Transcriptional regulator [Transcription]; Region: LysR; COG0583 452662009688 Helix-turn-helix domains; Region: HTH; cl00088 452662009689 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 452662009690 substrate binding pocket [chemical binding]; other site 452662009691 dimerization interface [polypeptide binding]; other site 452662009692 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 452662009693 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 452662009694 FAD binding site [chemical binding]; other site 452662009695 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 452662009696 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 452662009697 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 452662009698 Domain of unknown function (DUF4173); Region: DUF4173; pfam13777 452662009699 DNA-binding response regulator CreB; Provisional; Region: PRK11083 452662009700 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 452662009701 active site 452662009702 phosphorylation site [posttranslational modification] 452662009703 intermolecular recognition site; other site 452662009704 dimerization interface [polypeptide binding]; other site 452662009705 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 452662009706 DNA binding site [nucleotide binding] 452662009707 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 452662009708 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 452662009709 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 452662009710 dimer interface [polypeptide binding]; other site 452662009711 phosphorylation site [posttranslational modification] 452662009712 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 452662009713 ATP binding site [chemical binding]; other site 452662009714 Mg2+ binding site [ion binding]; other site 452662009715 G-X-G motif; other site 452662009716 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 452662009717 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 452662009718 Helix-turn-helix domains; Region: HTH; cl00088 452662009719 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 452662009720 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 452662009721 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 452662009722 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 452662009723 N-terminal plug; other site 452662009724 ligand-binding site [chemical binding]; other site 452662009725 NMT1-like family; Region: NMT1_2; cl15260 452662009726 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 452662009727 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 452662009728 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 452662009729 Walker A/P-loop; other site 452662009730 ATP binding site [chemical binding]; other site 452662009731 Q-loop/lid; other site 452662009732 ABC transporter signature motif; other site 452662009733 Walker B; other site 452662009734 D-loop; other site 452662009735 H-loop/switch region; other site 452662009736 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 452662009737 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 452662009738 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 452662009739 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 452662009740 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 452662009741 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 452662009742 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 452662009743 urea carboxylase; Region: urea_carbox; TIGR02712 452662009744 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 452662009745 ATP-grasp domain; Region: ATP-grasp_4; cl03087 452662009746 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 452662009747 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 452662009748 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 452662009749 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 452662009750 carboxyltransferase (CT) interaction site; other site 452662009751 biotinylation site [posttranslational modification]; other site 452662009752 allophanate hydrolase; Provisional; Region: PRK08186 452662009753 Amidase; Region: Amidase; cl11426 452662009754 Uncharacterized conserved protein [Function unknown]; Region: COG3391 452662009755 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 452662009756 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 452662009757 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 452662009758 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 452662009759 Transcriptional regulator [Transcription]; Region: LysR; COG0583 452662009760 Helix-turn-helix domains; Region: HTH; cl00088 452662009761 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 452662009762 dimerization interface [polypeptide binding]; other site 452662009763 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 452662009764 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 452662009765 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 452662009766 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 452662009767 putative catalytic residues [active] 452662009768 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 452662009769 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 452662009770 active site 452662009771 non-prolyl cis peptide bond; other site 452662009772 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 452662009773 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 452662009774 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 452662009775 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662009776 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662009777 Helix-turn-helix domains; Region: HTH; cl00088 452662009778 Transcriptional regulator [Transcription]; Region: LysR; COG0583 452662009779 Helix-turn-helix domains; Region: HTH; cl00088 452662009780 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 452662009781 dimerization interface [polypeptide binding]; other site 452662009782 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 452662009783 Helix-turn-helix domains; Region: HTH; cl00088 452662009784 Cupin domain; Region: Cupin_2; cl09118 452662009785 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 452662009786 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 452662009787 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 452662009788 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 452662009789 maleylacetoacetate isomerase; Region: maiA; TIGR01262 452662009790 C-terminal domain interface [polypeptide binding]; other site 452662009791 GSH binding site (G-site) [chemical binding]; other site 452662009792 putative dimer interface [polypeptide binding]; other site 452662009793 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 452662009794 dimer interface [polypeptide binding]; other site 452662009795 N-terminal domain interface [polypeptide binding]; other site 452662009796 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 452662009797 NADH:ubiquinone oxidoreductase 24 kD subunit [Energy production and conversion]; Region: NuoE; COG1905 452662009798 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 452662009799 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 452662009800 putative dimer interface [polypeptide binding]; other site 452662009801 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 452662009802 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 452662009803 SLBB domain; Region: SLBB; pfam10531 452662009804 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 452662009805 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 452662009806 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 452662009807 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 452662009808 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 452662009809 [4Fe-4S] binding site [ion binding]; other site 452662009810 molybdopterin cofactor binding site; other site 452662009811 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 452662009812 molybdopterin cofactor binding site; other site 452662009813 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 452662009814 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 452662009815 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 452662009816 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 452662009817 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 452662009818 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 452662009819 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 452662009820 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662009821 Transcriptional regulators [Transcription]; Region: FadR; COG2186 452662009822 Helix-turn-helix domains; Region: HTH; cl00088 452662009823 DNA-binding site [nucleotide binding]; DNA binding site 452662009824 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 452662009825 Helix-turn-helix domains; Region: HTH; cl00088 452662009826 PilZ domain; Region: PilZ; cl01260 452662009827 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 452662009828 sequence-specific DNA binding site [nucleotide binding]; other site 452662009829 salt bridge; other site 452662009830 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 452662009831 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 452662009832 active site 452662009833 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 452662009834 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 452662009835 substrate binding site [chemical binding]; other site 452662009836 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 452662009837 oxyanion hole (OAH) forming residues; other site 452662009838 trimer interface [polypeptide binding]; other site 452662009839 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662009840 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 452662009841 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 452662009842 Uncharacterized protein conserved in bacteria (DUF2171); Region: DUF2171; cl01558 452662009843 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 452662009844 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 452662009845 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 452662009846 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662009847 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662009848 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 452662009849 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 452662009850 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 452662009851 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 452662009852 translocation protein TolB; Provisional; Region: tolB; PRK02889 452662009853 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 452662009854 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 452662009855 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 452662009856 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 452662009857 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 452662009858 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 452662009859 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 452662009860 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 452662009861 Amidohydrolase; Region: Amidohydro_4; pfam13147 452662009862 active site 452662009863 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_3; cd06151 452662009864 homotrimer interaction site [polypeptide binding]; other site 452662009865 putative active site [active] 452662009866 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 452662009867 Cytochrome c; Region: Cytochrom_C; cl11414 452662009868 hypothetical protein; Validated; Region: PRK08238 452662009869 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 452662009870 UbiA prenyltransferase family; Region: UbiA; cl00337 452662009871 OpgC protein; Region: OpgC_C; cl00792 452662009872 Acyltransferase family; Region: Acyl_transf_3; pfam01757 452662009873 OpgC protein; Region: OpgC_C; cl00792 452662009874 Acyltransferase family; Region: Acyl_transf_3; pfam01757 452662009875 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 452662009876 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 452662009877 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 452662009878 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 452662009879 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 452662009880 active site 452662009881 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 452662009882 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 452662009883 active site 452662009884 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 452662009885 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 452662009886 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 452662009887 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 452662009888 Chain length determinant protein; Region: Wzz; cl15801 452662009889 chain length determinant protein EpsF; Region: EpsF; TIGR03017 452662009890 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 452662009891 Walker A motif; other site 452662009892 ATP binding site [chemical binding]; other site 452662009893 Walker B motif; other site 452662009894 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 452662009895 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 452662009896 SLBB domain; Region: SLBB; pfam10531 452662009897 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl12051 452662009898 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 452662009899 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 452662009900 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662009901 NAD(P) binding site [chemical binding]; other site 452662009902 active site 452662009903 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662009904 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662009905 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 452662009906 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 452662009907 Ligand binding site; other site 452662009908 Putative Catalytic site; other site 452662009909 DXD motif; other site 452662009910 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 452662009911 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 452662009912 active site 452662009913 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 452662009914 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662009915 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662009916 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 452662009917 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 452662009918 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 452662009919 Phosphopantetheine attachment site; Region: PP-binding; cl09936 452662009920 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 452662009921 trimer interface [polypeptide binding]; other site 452662009922 active site 452662009923 substrate binding site [chemical binding]; other site 452662009924 CoA binding site [chemical binding]; other site 452662009925 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 452662009926 trimer interface [polypeptide binding]; other site 452662009927 active site 452662009928 substrate binding site [chemical binding]; other site 452662009929 CoA binding site [chemical binding]; other site 452662009930 MatE; Region: MatE; cl10513 452662009931 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 452662009932 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 452662009933 PAS domain; Region: PAS_9; pfam13426 452662009934 putative active site [active] 452662009935 heme pocket [chemical binding]; other site 452662009936 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 452662009937 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 452662009938 putative active site [active] 452662009939 heme pocket [chemical binding]; other site 452662009940 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 452662009941 dimer interface [polypeptide binding]; other site 452662009942 phosphorylation site [posttranslational modification] 452662009943 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 452662009944 ATP binding site [chemical binding]; other site 452662009945 Mg2+ binding site [ion binding]; other site 452662009946 G-X-G motif; other site 452662009947 response regulator FixJ; Provisional; Region: fixJ; PRK09390 452662009948 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 452662009949 active site 452662009950 phosphorylation site [posttranslational modification] 452662009951 intermolecular recognition site; other site 452662009952 dimerization interface [polypeptide binding]; other site 452662009953 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 452662009954 DNA binding residues [nucleotide binding] 452662009955 dimerization interface [polypeptide binding]; other site 452662009956 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 452662009957 Bacterial sugar transferase; Region: Bac_transf; cl00939 452662009958 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 452662009959 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 452662009960 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 452662009961 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 452662009962 PA14 domain; Region: PA14; cl08459 452662009963 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 452662009964 Fibronectin type III-like domain; Region: Fn3-like; cl15273 452662009965 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 452662009966 substrate binding site [chemical binding]; other site 452662009967 active site 452662009968 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662009969 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 452662009970 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662009971 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662009972 SapC; Region: SapC; pfam07277 452662009973 JmjC domain, hydroxylase; Region: JmjC; cl15814 452662009974 Domain of unknown function (DUF303); Region: DUF303; pfam03629 452662009975 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 452662009976 Domain of unknown function (DUF303); Region: DUF303; pfam03629 452662009977 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 452662009978 NPCBM/NEW2 domain; Region: NPCBM; cl07060 452662009979 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 452662009980 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 452662009981 active site 452662009982 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 452662009983 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 452662009984 inhibitor binding site; inhibition site 452662009985 active site 452662009986 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 452662009987 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662009988 substrate binding pocket [chemical binding]; other site 452662009989 catalytic triad [active] 452662009990 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 452662009991 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 452662009992 inhibitor binding site; inhibition site 452662009993 active site 452662009994 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 452662009995 D-galactonate transporter; Region: 2A0114; TIGR00893 452662009996 putative substrate translocation pore; other site 452662009997 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 452662009998 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 452662009999 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 452662010000 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662010001 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 452662010002 Cupin domain; Region: Cupin_2; cl09118 452662010003 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 452662010004 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 452662010005 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 452662010006 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 452662010007 NADP binding site [chemical binding]; other site 452662010008 active site 452662010009 steroid binding site; other site 452662010010 EamA-like transporter family; Region: EamA; cl01037 452662010011 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 452662010012 EamA-like transporter family; Region: EamA; cl01037 452662010013 Transcriptional regulators [Transcription]; Region: PurR; COG1609 452662010014 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 452662010015 DNA binding site [nucleotide binding] 452662010016 domain linker motif; other site 452662010017 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 452662010018 putative ligand binding site [chemical binding]; other site 452662010019 putative dimerization interface [polypeptide binding]; other site 452662010020 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 452662010021 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 452662010022 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 452662010023 N-terminal plug; other site 452662010024 ligand-binding site [chemical binding]; other site 452662010025 Probable beta-xylosidase; Provisional; Region: PLN03080 452662010026 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 452662010027 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 452662010028 Fibronectin type III-like domain; Region: Fn3-like; cl15273 452662010029 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 452662010030 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 452662010031 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 452662010032 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662010033 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662010034 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 452662010035 recognition site for restriction enzyme I-CeuI 452662010036 potassium uptake protein; Region: kup; TIGR00794 452662010037 K+ potassium transporter; Region: K_trans; cl15781 452662010038 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical strategy; Region: CHS_like; cd00831 452662010039 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 452662010040 malonyl-CoA binding site [chemical binding]; other site 452662010041 dimer interface [polypeptide binding]; other site 452662010042 active site 452662010043 product binding site; other site 452662010044 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662010045 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 452662010046 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 452662010047 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 452662010048 putative substrate translocation pore; other site 452662010049 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 452662010050 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662010051 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662010052 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 452662010053 Helix-turn-helix domains; Region: HTH; cl00088 452662010054 Dehydratase family; Region: ILVD_EDD; cl00340 452662010055 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 452662010056 Helix-turn-helix domains; Region: HTH; cl00088 452662010057 The C-terminal substrate binding domain of LysR-type transcriptional regulator, IlvR, involved in the biosynthesis of isoleucine, leucine and valine; contains type 2 periplasmic binding fold; Region: PBP2_IlvR; cd08453 452662010058 putative dimerization interface [polypeptide binding]; other site 452662010059 putative substrate binding pocket [chemical binding]; other site 452662010060 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 452662010061 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 452662010062 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 452662010063 putative NAD(P) binding site [chemical binding]; other site 452662010064 active site 452662010065 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662010066 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 452662010067 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 452662010068 Helix-turn-helix domains; Region: HTH; cl00088 452662010069 Integrase core domain; Region: rve; cl01316 452662010070 Integrase core domain; Region: rve; cl01316 452662010071 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 452662010072 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 452662010073 ligand binding site [chemical binding]; other site 452662010074 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 452662010075 classical (c) SDRs; Region: SDR_c; cd05233 452662010076 NAD(P) binding site [chemical binding]; other site 452662010077 active site 452662010078 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 452662010079 classical (c) SDRs; Region: SDR_c; cd05233 452662010080 NAD(P) binding site [chemical binding]; other site 452662010081 active site 452662010082 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 452662010083 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 452662010084 putative active site [active] 452662010085 putative substrate binding site [chemical binding]; other site 452662010086 ATP binding site [chemical binding]; other site 452662010087 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 452662010088 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 452662010089 active site 452662010090 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 452662010091 Helix-turn-helix domains; Region: HTH; cl00088 452662010092 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 452662010093 Helix-turn-helix domains; Region: HTH; cl00088 452662010094 Predicted esterase [General function prediction only]; Region: COG0627 452662010095 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662010096 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 452662010097 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 452662010098 substrate binding site [chemical binding]; other site 452662010099 catalytic Zn binding site [ion binding]; other site 452662010100 NAD binding site [chemical binding]; other site 452662010101 structural Zn binding site [ion binding]; other site 452662010102 dimer interface [polypeptide binding]; other site 452662010103 Transcriptional regulator [Transcription]; Region: LysR; COG0583 452662010104 Helix-turn-helix domains; Region: HTH; cl00088 452662010105 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 452662010106 dimerization interface [polypeptide binding]; other site 452662010107 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 452662010108 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 452662010109 active site 452662010110 metal binding site [ion binding]; metal-binding site 452662010111 hexamer interface [polypeptide binding]; other site 452662010112 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 452662010113 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 452662010114 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 452662010115 ligand binding site [chemical binding]; other site 452662010116 flexible hinge region; other site 452662010117 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 452662010118 ligand binding site [chemical binding]; other site 452662010119 flexible hinge region; other site 452662010120 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 452662010121 4Fe-4S binding domain; Region: Fer4; cl02805 452662010122 TPR repeat; Region: TPR_11; pfam13414 452662010123 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 452662010124 binding surface 452662010125 TPR motif; other site 452662010126 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 452662010127 Uncharacterized conserved protein [Function unknown]; Region: COG5276 452662010128 LVIVD repeat; Region: LVIVD; pfam08309 452662010129 Domain of unknown function (DUF336); Region: DUF336; cl01249 452662010130 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 452662010131 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 452662010132 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 452662010133 Surface antigen; Region: Bac_surface_Ag; cl03097 452662010134 CHASE2 domain; Region: CHASE2; cl01732 452662010135 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 452662010136 cyclase homology domain; Region: CHD; cd07302 452662010137 nucleotidyl binding site; other site 452662010138 metal binding site [ion binding]; metal-binding site 452662010139 dimer interface [polypeptide binding]; other site 452662010140 CHAT domain; Region: CHAT; pfam12770 452662010141 High-affinity nickel-transport protein; Region: NicO; cl00964 452662010142 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 452662010143 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662010144 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 452662010145 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 452662010146 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 452662010147 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 452662010148 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 452662010149 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 452662010150 homodimer interface [polypeptide binding]; other site 452662010151 Walker A motif; other site 452662010152 ATP binding site [chemical binding]; other site 452662010153 hydroxycobalamin binding site [chemical binding]; other site 452662010154 Walker B motif; other site 452662010155 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 452662010156 putative FMN binding site [chemical binding]; other site 452662010157 precorrin-3B synthase; Region: CobG; TIGR02435 452662010158 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 452662010159 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 452662010160 Precorrin-8X methylmutase; Region: CbiC; pfam02570 452662010161 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 452662010162 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 452662010163 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 452662010164 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 452662010165 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 452662010166 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 452662010167 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 452662010168 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; cl15754 452662010169 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 452662010170 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 452662010171 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 452662010172 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 452662010173 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662010174 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 452662010175 catalytic triad [active] 452662010176 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 452662010177 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 452662010178 SpoVR family protein; Provisional; Region: PRK11767 452662010179 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 452662010180 Uncharacterized conserved protein [Function unknown]; Region: COG2718 452662010181 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 452662010182 PrkA family serine protein kinase; Provisional; Region: PRK15455 452662010183 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662010184 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 452662010185 recognition site for restriction enzyme SwaI 452662010186 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 452662010187 sensor protein RstB; Provisional; Region: PRK10604 452662010188 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 452662010189 ATP binding site [chemical binding]; other site 452662010190 Mg2+ binding site [ion binding]; other site 452662010191 G-X-G motif; other site 452662010192 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 452662010193 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 452662010194 active site 452662010195 phosphorylation site [posttranslational modification] 452662010196 intermolecular recognition site; other site 452662010197 dimerization interface [polypeptide binding]; other site 452662010198 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 452662010199 DNA binding site [nucleotide binding] 452662010200 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 452662010201 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662010202 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662010203 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 452662010204 Protein export membrane protein; Region: SecD_SecF; cl14618 452662010205 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 452662010206 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 452662010207 homotrimer interface [polypeptide binding]; other site 452662010208 Walker A motif; other site 452662010209 GTP binding site [chemical binding]; other site 452662010210 Walker B motif; other site 452662010211 CobD/Cbib protein; Region: CobD_Cbib; cl00561 452662010212 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 452662010213 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 452662010214 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452662010215 homodimer interface [polypeptide binding]; other site 452662010216 catalytic residue [active] 452662010217 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 452662010218 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 452662010219 catalytic core [active] 452662010220 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 452662010221 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 452662010222 putative dimer interface [polypeptide binding]; other site 452662010223 active site pocket [active] 452662010224 putative cataytic base [active] 452662010225 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 452662010226 MgtC family; Region: MgtC; pfam02308 452662010227 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 452662010228 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 452662010229 dimer interface [polypeptide binding]; other site 452662010230 active site 452662010231 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 452662010232 SGNH_hydrolase subfamily, similar to the putative arylesterase/acylhydrolase from the rumen anaerobe Prevotella bryantii XynE. The P. bryantii XynE gene is located in a xylanase gene cluster. SGNH hydrolases are a diverse family of lipases and esterases; Region: XynE_like; cd01830 452662010233 active site 452662010234 catalytic triad [active] 452662010235 oxyanion hole [active] 452662010236 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 452662010237 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662010238 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 452662010239 ligand-binding site [chemical binding]; other site 452662010240 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 452662010241 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 452662010242 Glucuronate isomerase; Region: UxaC; cl00829 452662010243 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 452662010244 D-galactonate transporter; Region: 2A0114; TIGR00893 452662010245 putative substrate translocation pore; other site 452662010246 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 452662010247 The starvation sensing protein RpsA from E.coli and its homologs are lactonizing enzymes whose putative targets are homoserine lactone (HSL)-derivative. They are part of the mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of...; Region: rpsA; cd03322 452662010248 putative active site pocket [active] 452662010249 putative metal binding site [ion binding]; other site 452662010250 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 452662010251 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 452662010252 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 452662010253 Fibronectin type III-like domain; Region: Fn3-like; cl15273 452662010254 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 452662010255 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 452662010256 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 452662010257 Fibronectin type III-like domain; Region: Fn3-like; cl15273 452662010258 Alpha-glucuronidase [Carbohydrate transport and metabolism]; Region: AguA; COG3661 452662010259 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 452662010260 Glycosyl hydrolase family 67 C-terminus; Region: Glyco_hydro_67C; pfam07477 452662010261 Transcriptional regulators [Transcription]; Region: PurR; COG1609 452662010262 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 452662010263 DNA binding site [nucleotide binding] 452662010264 domain linker motif; other site 452662010265 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 452662010266 putative dimerization interface [polypeptide binding]; other site 452662010267 putative ligand binding site [chemical binding]; other site 452662010268 Helix-turn-helix domains; Region: HTH; cl00088 452662010269 Helix-turn-helix domains; Region: HTH; cl00088 452662010270 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 452662010271 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 452662010272 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 452662010273 Fatty acid desaturase; Region: FA_desaturase; pfam00487 452662010274 putative di-iron ligands [ion binding]; other site 452662010275 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 452662010276 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 452662010277 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 452662010278 DNA-binding site [nucleotide binding]; DNA binding site 452662010279 FCD domain; Region: FCD; cl11656 452662010280 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 452662010281 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662010282 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 452662010283 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12406 452662010284 AMP-binding enzyme; Region: AMP-binding; cl15778 452662010285 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 452662010286 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 452662010287 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662010288 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 452662010289 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 452662010290 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662010291 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662010292 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 452662010293 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 452662010294 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 452662010295 Helix-turn-helix domains; Region: HTH; cl00088 452662010296 WHG domain; Region: WHG; pfam13305 452662010297 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 452662010298 conserved cys residue [active] 452662010299 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 452662010300 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 452662010301 Helix-turn-helix domains; Region: HTH; cl00088 452662010302 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 452662010303 dimerization interface [polypeptide binding]; other site 452662010304 Flavin Reductases; Region: FlaRed; cl00801 452662010305 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 452662010306 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662010307 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 452662010308 NAD(P) binding site [chemical binding]; other site 452662010309 active site 452662010310 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 452662010311 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 452662010312 N-terminal plug; other site 452662010313 ligand-binding site [chemical binding]; other site 452662010314 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 452662010315 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 452662010316 [2Fe-2S] cluster binding site [ion binding]; other site 452662010317 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 452662010318 alpha subunit interface [polypeptide binding]; other site 452662010319 active site 452662010320 substrate binding site [chemical binding]; other site 452662010321 Fe binding site [ion binding]; other site 452662010322 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 452662010323 classical (c) SDRs; Region: SDR_c; cd05233 452662010324 NAD(P) binding site [chemical binding]; other site 452662010325 active site 452662010326 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 452662010327 Helix-turn-helix domains; Region: HTH; cl00088 452662010328 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 452662010329 The single-domain 2,3-dihydroxybiphenyl 1,2-dioxygenases (BphC, EC 1.13.11.39) from Rhodococcus globerulus P6, BphC2-RGP6 and BphC3-RGP6, and similar proteins; Region: BphC2-C3-RGP6_C_like; cd08348 452662010330 putative active site [active] 452662010331 putative metal binding site [ion binding]; other site 452662010332 hypothetical protein; Provisional; Region: PRK06126 452662010333 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662010334 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662010335 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 452662010336 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 452662010337 classical (c) SDRs; Region: SDR_c; cd05233 452662010338 NAD(P) binding site [chemical binding]; other site 452662010339 active site 452662010340 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 452662010341 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 452662010342 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 452662010343 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 452662010344 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cl00522 452662010345 dimerization interface [polypeptide binding]; other site 452662010346 active site 452662010347 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 452662010348 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 452662010349 substrate binding site [chemical binding]; other site 452662010350 oxyanion hole (OAH) forming residues; other site 452662010351 trimer interface [polypeptide binding]; other site 452662010352 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662010353 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 452662010354 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 452662010355 enoyl-CoA hydratase; Provisional; Region: PRK06190 452662010356 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 452662010357 substrate binding site [chemical binding]; other site 452662010358 oxyanion hole (OAH) forming residues; other site 452662010359 trimer interface [polypeptide binding]; other site 452662010360 acetyl-CoA acetyltransferase; Provisional; Region: PRK06504 452662010361 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 452662010362 dimer interface [polypeptide binding]; other site 452662010363 active site 452662010364 enoyl-CoA hydratase; Region: PLN02864 452662010365 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 452662010366 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 452662010367 dimer interaction site [polypeptide binding]; other site 452662010368 substrate-binding tunnel; other site 452662010369 active site 452662010370 catalytic site [active] 452662010371 substrate binding site [chemical binding]; other site 452662010372 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 452662010373 Helix-turn-helix domains; Region: HTH; cl00088 452662010374 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 452662010375 AMP-binding enzyme; Region: AMP-binding; cl15778 452662010376 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 452662010377 enoyl-CoA hydratase; Provisional; Region: PRK08140 452662010378 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 452662010379 substrate binding site [chemical binding]; other site 452662010380 oxyanion hole (OAH) forming residues; other site 452662010381 trimer interface [polypeptide binding]; other site 452662010382 enoyl-CoA hydratase; Provisional; Region: PRK07509 452662010383 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 452662010384 substrate binding site [chemical binding]; other site 452662010385 oxyanion hole (OAH) forming residues; other site 452662010386 trimer interface [polypeptide binding]; other site 452662010387 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 452662010388 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 452662010389 active site 452662010390 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 452662010391 Helix-turn-helix domains; Region: HTH; cl00088 452662010392 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 452662010393 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 452662010394 substrate binding site [chemical binding]; other site 452662010395 oxyanion hole (OAH) forming residues; other site 452662010396 trimer interface [polypeptide binding]; other site 452662010397 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662010398 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 452662010399 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 452662010400 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 452662010401 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 452662010402 dimer interface [polypeptide binding]; other site 452662010403 active site 452662010404 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 452662010405 CoA-transferase family III; Region: CoA_transf_3; pfam02515 452662010406 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 452662010407 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 452662010408 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 452662010409 Trp docking motif [polypeptide binding]; other site 452662010410 active site 452662010411 cytochrome domain interface [polypeptide binding]; other site 452662010412 Cytochrome c; Region: Cytochrom_C; cl11414 452662010413 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 452662010414 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 452662010415 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 452662010416 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662010417 NAD(P) binding site [chemical binding]; other site 452662010418 active site 452662010419 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 452662010420 AMP-binding enzyme; Region: AMP-binding; cl15778 452662010421 AMP-binding enzyme; Region: AMP-binding; cl15778 452662010422 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 452662010423 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 452662010424 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 452662010425 active site 452662010426 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 452662010427 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 452662010428 [2Fe-2S] cluster binding site [ion binding]; other site 452662010429 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 452662010430 alpha subunit interface [polypeptide binding]; other site 452662010431 active site 452662010432 substrate binding site [chemical binding]; other site 452662010433 Fe binding site [ion binding]; other site 452662010434 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 452662010435 putative active site [active] 452662010436 putative catalytic site [active] 452662010437 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 452662010438 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 452662010439 NAD(P) binding site [chemical binding]; other site 452662010440 Phosphotransferase enzyme family; Region: APH; pfam01636 452662010441 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 452662010442 putative active site [active] 452662010443 putative substrate binding site [chemical binding]; other site 452662010444 ATP binding site [chemical binding]; other site 452662010445 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 452662010446 classical (c) SDRs; Region: SDR_c; cd05233 452662010447 NAD(P) binding site [chemical binding]; other site 452662010448 active site 452662010449 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 452662010450 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 452662010451 N-terminal plug; other site 452662010452 ligand-binding site [chemical binding]; other site 452662010453 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 452662010454 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 452662010455 substrate binding site [chemical binding]; other site 452662010456 oxyanion hole (OAH) forming residues; other site 452662010457 trimer interface [polypeptide binding]; other site 452662010458 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 452662010459 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 452662010460 classical (c) SDRs; Region: SDR_c; cd05233 452662010461 NAD(P) binding site [chemical binding]; other site 452662010462 active site 452662010463 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 452662010464 hypothetical protein; Provisional; Region: PRK06126 452662010465 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662010466 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662010467 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 452662010468 Helix-turn-helix domains; Region: HTH; cl00088 452662010469 recognition site for restriction enzyme PacI 452662010470 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 452662010471 The single-domain 2,3-dihydroxybiphenyl 1,2-dioxygenases (BphC, EC 1.13.11.39) from Rhodococcus globerulus P6, BphC2-RGP6 and BphC3-RGP6, and similar proteins; Region: BphC2-C3-RGP6_C_like; cd08348 452662010472 putative active site [active] 452662010473 putative metal binding site [ion binding]; other site 452662010474 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 452662010475 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 452662010476 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 452662010477 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 452662010478 Helix-turn-helix domains; Region: HTH; cl00088 452662010479 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 452662010480 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 452662010481 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 452662010482 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452662010483 homodimer interface [polypeptide binding]; other site 452662010484 catalytic residue [active] 452662010485 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 452662010486 intersubunit interface [polypeptide binding]; other site 452662010487 active site 452662010488 Zn2+ binding site [ion binding]; other site 452662010489 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 452662010490 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl15306 452662010491 membrane-bound complex binding site; other site 452662010492 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 452662010493 active site residue [active] 452662010494 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic...; Region: 4RHOD_Repeat_2; cd01533 452662010495 active site residue [active] 452662010496 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative...; Region: 4RHOD_Repeat_3; cd01534 452662010497 active site residue [active] 452662010498 Cysteine dioxygenase type I; Region: CDO_I; cl15835 452662010499 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 452662010500 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 452662010501 Walker A/P-loop; other site 452662010502 ATP binding site [chemical binding]; other site 452662010503 Q-loop/lid; other site 452662010504 ABC transporter signature motif; other site 452662010505 Walker B; other site 452662010506 D-loop; other site 452662010507 H-loop/switch region; other site 452662010508 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 452662010509 Transcriptional regulator [Transcription]; Region: LysR; COG0583 452662010510 Helix-turn-helix domains; Region: HTH; cl00088 452662010511 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 452662010512 dimerization interface [polypeptide binding]; other site 452662010513 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 452662010514 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662010515 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 452662010516 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 452662010517 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 452662010518 active site 452662010519 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 452662010520 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 452662010521 substrate binding pocket [chemical binding]; other site 452662010522 membrane-bound complex binding site; other site 452662010523 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 452662010524 4Fe-4S binding domain; Region: Fer4; cl02805 452662010525 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 452662010526 active site 452662010527 metal binding site [ion binding]; metal-binding site 452662010528 Bacillus subtilis YvnB and related proteins, metallophosphatase domain; Region: MPP_YvnB; cd07399 452662010529 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662010530 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 452662010531 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 452662010532 catalytic residues [active] 452662010533 catalytic nucleophile [active] 452662010534 Presynaptic Site I dimer interface [polypeptide binding]; other site 452662010535 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 452662010536 Synaptic Flat tetramer interface [polypeptide binding]; other site 452662010537 Synaptic Site I dimer interface [polypeptide binding]; other site 452662010538 DNA binding site [nucleotide binding] 452662010539 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 452662010540 DNA-binding interface [nucleotide binding]; DNA binding site 452662010541 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 452662010542 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 452662010543 ParB-like nuclease domain; Region: ParBc; cl02129 452662010544 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 452662010545 plasmid partitioning protein; Provisional; Region: PRK13832 452662010546 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 452662010547 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 452662010548 Fic/DOC family; Region: Fic; cl00960 452662010549 Protein of unknown function (DUF3768); Region: DUF3768; pfam12599 452662010550 Methyltransferase domain; Region: Methyltransf_27; pfam13708 452662010551 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662010552 Transposase domain (DUF772); Region: DUF772; cl15789 452662010553 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 452662010554 Transposase domain (DUF772); Region: DUF772; cl15789 452662010555 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 452662010556 non-specific DNA binding site [nucleotide binding]; other site 452662010557 salt bridge; other site 452662010558 sequence-specific DNA binding site [nucleotide binding]; other site 452662010559 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 452662010560 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 452662010561 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 452662010562 catalytic residues [active] 452662010563 catalytic nucleophile [active] 452662010564 Helix-turn-helix domains; Region: HTH; cl00088 452662010565 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 452662010566 dimer interface [polypeptide binding]; other site 452662010567 ssDNA binding site [nucleotide binding]; other site 452662010568 tetramer (dimer of dimers) interface [polypeptide binding]; other site 452662010569 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 452662010570 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 452662010571 P-loop; other site 452662010572 Magnesium ion binding site [ion binding]; other site 452662010573 Organiser of macrodomain of Terminus of chromosome; Region: MatP; cl11476 452662010574 ParB-like nuclease domain; Region: ParBc; cl02129 452662010575 may be target duplication site 452662010576 Integrase core domain; Region: rve; cl01316 452662010577 DDE domain; Region: DDE_Tnp_IS240; pfam13610 452662010578 Integrase core domain; Region: rve; cl01316 452662010579 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 452662010580 may be target duplication site 452662010581 may be target duplication site 452662010582 Integrase core domain; Region: rve; cl01316 452662010583 DDE domain; Region: DDE_Tnp_IS240; pfam13610 452662010584 Integrase core domain; Region: rve; cl01316 452662010585 may be target duplication site 452662010586 glutathionine S-transferase; Provisional; Region: PRK10542 452662010587 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 452662010588 C-terminal domain interface [polypeptide binding]; other site 452662010589 GSH binding site (G-site) [chemical binding]; other site 452662010590 dimer interface [polypeptide binding]; other site 452662010591 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 452662010592 substrate binding pocket (H-site) [chemical binding]; other site 452662010593 dimer interface [polypeptide binding]; other site 452662010594 N-terminal domain interface [polypeptide binding]; other site 452662010595 Predicted esterase [General function prediction only]; Region: COG0400 452662010596 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662010597 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 452662010598 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 452662010599 active site 452662010600 dimer interface [polypeptide binding]; other site 452662010601 metal binding site [ion binding]; metal-binding site 452662010602 Transcriptional regulator [Transcription]; Region: LysR; COG0583 452662010603 Helix-turn-helix domains; Region: HTH; cl00088 452662010604 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 452662010605 substrate binding pocket [chemical binding]; other site 452662010606 dimerization interface [polypeptide binding]; other site 452662010607 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 452662010608 Zn binding site [ion binding]; other site 452662010609 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 452662010610 Zn binding site [ion binding]; other site 452662010611 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 452662010612 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 452662010613 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 452662010614 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 452662010615 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 452662010616 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 452662010617 putative dimer interface [polypeptide binding]; other site 452662010618 N-terminal domain interface [polypeptide binding]; other site 452662010619 putative substrate binding pocket (H-site) [chemical binding]; other site 452662010620 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 452662010621 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 452662010622 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 452662010623 FMN binding site [chemical binding]; other site 452662010624 active site 452662010625 substrate binding site [chemical binding]; other site 452662010626 catalytic residue [active] 452662010627 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 452662010628 Helix-turn-helix domains; Region: HTH; cl00088 452662010629 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 452662010630 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 452662010631 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 452662010632 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 452662010633 catalytic Zn binding site [ion binding]; other site 452662010634 NAD binding site [chemical binding]; other site 452662010635 structural Zn binding site [ion binding]; other site 452662010636 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 452662010637 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 452662010638 active site 452662010639 catalytic site [active] 452662010640 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 452662010641 active site 2 [active] 452662010642 active site 1 [active] 452662010643 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 452662010644 CoA-transferase family III; Region: CoA_transf_3; pfam02515 452662010645 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 452662010646 CoA-transferase family III; Region: CoA_transf_3; pfam02515 452662010647 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 452662010648 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 452662010649 NAD(P) binding site [chemical binding]; other site 452662010650 catalytic residues [active] 452662010651 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662010652 NAD(P) binding site [chemical binding]; other site 452662010653 active site 452662010654 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 452662010655 DUF35 OB-fold domain; Region: DUF35; pfam01796 452662010656 thiolase; Provisional; Region: PRK06158 452662010657 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 452662010658 active site 452662010659 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 452662010660 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 452662010661 N-terminal plug; other site 452662010662 ligand-binding site [chemical binding]; other site 452662010663 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 452662010664 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 452662010665 tetramerization interface [polypeptide binding]; other site 452662010666 NAD(P) binding site [chemical binding]; other site 452662010667 catalytic residues [active] 452662010668 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 452662010669 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 452662010670 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 452662010671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662010672 NAD(P) binding site [chemical binding]; other site 452662010673 active site 452662010674 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 452662010675 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662010676 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 452662010677 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662010678 NAD(P) binding site [chemical binding]; other site 452662010679 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 452662010680 classical (c) SDRs; Region: SDR_c; cd05233 452662010681 NAD(P) binding site [chemical binding]; other site 452662010682 active site 452662010683 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 452662010684 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 452662010685 N-terminal plug; other site 452662010686 ligand-binding site [chemical binding]; other site 452662010687 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 452662010688 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 452662010689 FMN binding site [chemical binding]; other site 452662010690 substrate binding site [chemical binding]; other site 452662010691 putative catalytic residue [active] 452662010692 WHG domain; Region: WHG; pfam13305 452662010693 Helix-turn-helix domains; Region: HTH; cl00088 452662010694 Prostaglandin dehydrogenases; Region: PGDH; cd05288 452662010695 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 452662010696 NAD(P) binding site [chemical binding]; other site 452662010697 substrate binding site [chemical binding]; other site 452662010698 dimer interface [polypeptide binding]; other site 452662010699 acetyl-CoA acetyltransferase; Provisional; Region: PRK06205 452662010700 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 452662010701 dimer interface [polypeptide binding]; other site 452662010702 active site 452662010703 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 452662010704 Helix-turn-helix domains; Region: HTH; cl00088 452662010705 Bacterial transcriptional regulator; Region: IclR; pfam01614 452662010706 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 452662010707 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 452662010708 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 452662010709 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 452662010710 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 452662010711 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 452662010712 Protein export membrane protein; Region: SecD_SecF; cl14618 452662010713 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 452662010714 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 452662010715 MltA-interacting protein MipA; Region: MipA; cl01504 452662010716 LytTr DNA-binding domain; Region: LytTR; cl04498 452662010717 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 452662010718 Helix-turn-helix domains; Region: HTH; cl00088 452662010719 WHG domain; Region: WHG; pfam13305 452662010720 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; cl15754 452662010721 Uncharacterized conserved protein [Function unknown]; Region: COG2850 452662010722 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 452662010723 pseudouridine synthase; Region: TIGR00093 452662010724 active site 452662010725 Predicted transcriptional regulator [Transcription]; Region: COG4957 452662010726 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 452662010727 Protein of unknown function (DUF328); Region: DUF328; cl01143 452662010728 Transposase domain (DUF772); Region: DUF772; cl15789 452662010729 Transposase domain (DUF772); Region: DUF772; cl15789 452662010730 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 452662010731 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 452662010732 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 452662010733 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 452662010734 DXD motif; other site 452662010735 PilZ domain; Region: PilZ; cl01260 452662010736 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 452662010737 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 452662010738 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 452662010739 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 452662010740 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 452662010741 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 452662010742 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 452662010743 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 452662010744 active site 452662010745 Zn binding site [ion binding]; other site 452662010746 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 452662010747 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452662010748 NAD(P) binding site [chemical binding]; other site 452662010749 active site 452662010750 Major Facilitator Superfamily; Region: MFS_1; pfam07690 452662010751 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 452662010752 short chain dehydrogenase; Provisional; Region: PRK06701 452662010753 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 452662010754 NAD binding site [chemical binding]; other site 452662010755 metal binding site [ion binding]; metal-binding site 452662010756 active site 452662010757 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 452662010758 PAS fold; Region: PAS_3; pfam08447 452662010759 putative active site [active] 452662010760 heme pocket [chemical binding]; other site 452662010761 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 452662010762 metal binding site [ion binding]; metal-binding site 452662010763 active site 452662010764 I-site; other site 452662010765 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 452662010766 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 452662010767 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 452662010768 N-terminal plug; other site 452662010769 ligand-binding site [chemical binding]; other site 452662010770 Helix-turn-helix domains; Region: HTH; cl00088 452662010771 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 452662010772 Phosphopantetheine attachment site; Region: PP-binding; cl09936 452662010773 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 452662010774 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 452662010775 S-adenosylmethionine binding site [chemical binding]; other site 452662010776 acyl-CoA synthetase; Validated; Region: PRK05850 452662010777 AMP-binding enzyme; Region: AMP-binding; cl15778 452662010778 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 452662010779 GAF domain; Region: GAF; cl15785 452662010780 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 452662010781 dimer interface [polypeptide binding]; other site 452662010782 phosphorylation site [posttranslational modification] 452662010783 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 452662010784 ATP binding site [chemical binding]; other site 452662010785 Mg2+ binding site [ion binding]; other site 452662010786 G-X-G motif; other site 452662010787 Response regulator receiver domain; Region: Response_reg; pfam00072 452662010788 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 452662010789 active site 452662010790 phosphorylation site [posttranslational modification] 452662010791 intermolecular recognition site; other site 452662010792 dimerization interface [polypeptide binding]; other site 452662010793 acetyl-CoA synthetase; Provisional; Region: PRK00174 452662010794 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 452662010795 AMP-binding enzyme; Region: AMP-binding; cl15778 452662010796 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 452662010797 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 452662010798 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 452662010799 active site residue [active] 452662010800 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 452662010801 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 452662010802 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 452662010803 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 452662010804 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 452662010805 N-terminal plug; other site 452662010806 ligand-binding site [chemical binding]; other site 452662010807 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 452662010808 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 452662010809 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 452662010810 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 452662010811 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 452662010812 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 452662010813 Cytochrome c; Region: Cytochrom_C; cl11414 452662010814 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 452662010815 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl15306 452662010816 substrate binding pocket [chemical binding]; other site 452662010817 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 452662010818 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 452662010819 dimer interface [polypeptide binding]; other site 452662010820 Trp docking motif [polypeptide binding]; other site 452662010821 active site 452662010822 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 452662010823 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 452662010824 active site 452662010825 phosphorylation site [posttranslational modification] 452662010826 intermolecular recognition site; other site 452662010827 dimerization interface [polypeptide binding]; other site 452662010828 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 452662010829 DNA binding residues [nucleotide binding] 452662010830 dimerization interface [polypeptide binding]; other site 452662010831 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 452662010832 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 452662010833 putative deacylase active site [active] 452662010834 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 452662010835 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 452662010836 dimer interface [polypeptide binding]; other site 452662010837 active site 452662010838 heme binding site [chemical binding]; other site 452662010839 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 452662010840 PAS fold; Region: PAS_7; pfam12860 452662010841 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 452662010842 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 452662010843 dimer interface [polypeptide binding]; other site 452662010844 phosphorylation site [posttranslational modification] 452662010845 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 452662010846 ATP binding site [chemical binding]; other site 452662010847 Mg2+ binding site [ion binding]; other site 452662010848 G-X-G motif; other site 452662010849 Response regulator receiver domain; Region: Response_reg; pfam00072 452662010850 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 452662010851 active site 452662010852 phosphorylation site [posttranslational modification] 452662010853 intermolecular recognition site; other site 452662010854 dimerization interface [polypeptide binding]; other site 452662010855 Uncharacterized conserved protein [Function unknown]; Region: COG3287 452662010856 FIST N domain; Region: FIST; cl10701 452662010857 FIST C domain; Region: FIST_C; pfam10442 452662010858 Protein of unknown function (DUF779); Region: DUF779; cl01432 452662010859 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 452662010860 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 452662010861 NAD(P) binding site [chemical binding]; other site 452662010862 catalytic residues [active] 452662010863 putative acyltransferase; Provisional; Region: PRK05790 452662010864 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 452662010865 dimer interface [polypeptide binding]; other site 452662010866 active site 452662010867 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 452662010868 CoenzymeA binding site [chemical binding]; other site 452662010869 subunit interaction site [polypeptide binding]; other site 452662010870 PHB binding site; other site 452662010871 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 452662010872 Helix-turn-helix domains; Region: HTH; cl00088 452662010873 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 452662010874 active site 452662010875 catalytic residues [active] 452662010876 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 452662010877 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 452662010878 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 452662010879 P-loop; other site 452662010880 Magnesium ion binding site [ion binding]; other site 452662010881 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 452662010882 Magnesium ion binding site [ion binding]; other site 452662010883 ParB-like nuclease domain; Region: ParBc; cl02129 452662010884 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454