-- dump date 20120504_144603 -- class Genbank::misc_feature -- table misc_feature_note -- id note 376686000001 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 376686000002 catalytic motif [active] 376686000003 Zn binding site [ion binding]; other site 376686000004 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 376686000005 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 376686000006 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 376686000007 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 376686000008 active site 376686000009 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 376686000010 DnaA N-terminal domain; Region: DnaA_N; pfam11638 376686000011 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 376686000012 Walker A motif; other site 376686000013 ATP binding site [chemical binding]; other site 376686000014 Walker B motif; other site 376686000015 arginine finger; other site 376686000016 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 376686000017 DnaA box-binding interface [nucleotide binding]; other site 376686000018 Low molecular weight phosphatase family; Region: LMWPc; cd00115 376686000019 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 376686000020 active site 376686000021 Predicted methyltransferases [General function prediction only]; Region: COG0313 376686000022 Gram-negative bacterial tonB protein; Region: TonB; cl10048 376686000023 methionine aminotransferase; Validated; Region: PRK09082 376686000024 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 376686000025 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686000026 homodimer interface [polypeptide binding]; other site 376686000027 catalytic residue [active] 376686000028 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 376686000029 short chain dehydrogenase; Provisional; Region: PRK07677 376686000030 NAD(P) binding site [chemical binding]; other site 376686000031 substrate binding site [chemical binding]; other site 376686000032 homotetramer interface [polypeptide binding]; other site 376686000033 active site 376686000034 homodimer interface [polypeptide binding]; other site 376686000035 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 376686000036 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 376686000037 ATP-binding site [chemical binding]; other site 376686000038 Sugar specificity; other site 376686000039 Pyrimidine base specificity; other site 376686000040 Septum formation initiator; Region: DivIC; cl11433 376686000041 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 376686000042 heterodimer interface [polypeptide binding]; other site 376686000043 substrate interaction site [chemical binding]; other site 376686000044 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 376686000045 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 376686000046 active site 376686000047 substrate binding site [chemical binding]; other site 376686000048 coenzyme B12 binding site [chemical binding]; other site 376686000049 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 376686000050 B12 binding site [chemical binding]; other site 376686000051 cobalt ligand [ion binding]; other site 376686000052 YceG-like family; Region: YceG; pfam02618 376686000053 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 376686000054 dimerization interface [polypeptide binding]; other site 376686000055 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 376686000056 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 376686000057 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 376686000058 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 376686000059 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 376686000060 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 376686000061 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 376686000062 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 376686000063 protein binding site [polypeptide binding]; other site 376686000064 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 376686000065 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686000066 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 376686000067 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 376686000068 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 376686000069 putative DNA binding site [nucleotide binding]; other site 376686000070 putative Zn2+ binding site [ion binding]; other site 376686000071 Helix-turn-helix domains; Region: HTH; cl00088 376686000072 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 376686000073 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 376686000074 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686000075 Sulfatase; Region: Sulfatase; cl10460 376686000076 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 376686000077 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 376686000078 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 376686000079 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 376686000080 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 376686000081 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 376686000082 active site 376686000083 dimer interface [polypeptide binding]; other site 376686000084 motif 1; other site 376686000085 motif 2; other site 376686000086 motif 3; other site 376686000087 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 376686000088 anticodon binding site; other site 376686000089 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 376686000090 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 376686000091 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 376686000092 ribosomal protein L20; Region: rpl20; CHL00068 376686000093 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 376686000094 23S rRNA binding site [nucleotide binding]; other site 376686000095 L21 binding site [polypeptide binding]; other site 376686000096 L13 binding site [polypeptide binding]; other site 376686000097 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 376686000098 ligand binding site [chemical binding]; other site 376686000099 flexible hinge region; other site 376686000100 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 376686000101 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686000102 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 376686000103 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 376686000104 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686000105 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686000106 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 376686000107 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 376686000108 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686000109 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 376686000110 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 376686000111 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 376686000112 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 376686000113 putative active site [active] 376686000114 putative catalytic site [active] 376686000115 putative Mg binding site IVb [ion binding]; other site 376686000116 putative phosphate binding site [ion binding]; other site 376686000117 putative DNA binding site [nucleotide binding]; other site 376686000118 putative Mg binding site IVa [ion binding]; other site 376686000119 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 376686000120 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 376686000121 active site 376686000122 phosphorylation site [posttranslational modification] 376686000123 intermolecular recognition site; other site 376686000124 dimerization interface [polypeptide binding]; other site 376686000125 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 376686000126 DNA binding residues [nucleotide binding] 376686000127 dimerization interface [polypeptide binding]; other site 376686000128 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 376686000129 Histidine kinase; Region: HisKA_3; pfam07730 376686000130 replicative DNA helicase; Region: DnaB; TIGR00665 376686000131 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 376686000132 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 376686000133 Walker A motif; other site 376686000134 ATP binding site [chemical binding]; other site 376686000135 Walker B motif; other site 376686000136 DNA binding loops [nucleotide binding] 376686000137 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 376686000138 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 376686000139 EamA-like transporter family; Region: EamA; cl01037 376686000140 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 376686000141 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 376686000142 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 376686000143 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 376686000144 tRNA-guanine transglycosylases, various specificities; Region: tgt_general; TIGR00449 376686000145 YdjC-like protein; Region: YdjC; cl01344 376686000146 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 376686000147 TPP-binding site [chemical binding]; other site 376686000148 dimer interface [polypeptide binding]; other site 376686000149 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 376686000150 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 376686000151 PYR/PP interface [polypeptide binding]; other site 376686000152 dimer interface [polypeptide binding]; other site 376686000153 TPP binding site [chemical binding]; other site 376686000154 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 376686000155 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 376686000156 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 376686000157 RNA binding surface [nucleotide binding]; other site 376686000158 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 376686000159 active site 376686000160 shikimate kinase; Reviewed; Region: aroK; PRK00131 376686000161 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 376686000162 ADP binding site [chemical binding]; other site 376686000163 magnesium binding site [ion binding]; other site 376686000164 putative shikimate binding site; other site 376686000165 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 376686000166 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 376686000167 binding surface 376686000168 TPR repeat; Region: TPR_11; pfam13414 376686000169 TPR motif; other site 376686000170 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 376686000171 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 376686000172 DNA binding residues [nucleotide binding] 376686000173 B12 binding domain; Region: B12-binding_2; cl03653 376686000174 phytoene desaturase; Region: crtI_fam; TIGR02734 376686000175 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686000176 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 376686000177 active site lid residues [active] 376686000178 substrate binding pocket [chemical binding]; other site 376686000179 catalytic residues [active] 376686000180 substrate-Mg2+ binding site; other site 376686000181 aspartate-rich region 1; other site 376686000182 aspartate-rich region 2; other site 376686000183 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 376686000184 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 376686000185 putative hydrophobic ligand binding site [chemical binding]; other site 376686000186 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 376686000187 DNA photolyase; Region: DNA_photolyase; pfam00875 376686000188 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 376686000189 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 376686000190 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686000191 TIGR01777 family protein; Region: yfcH 376686000192 NAD(P) binding site [chemical binding]; other site 376686000193 active site 376686000194 YceI-like domain; Region: YceI; cl01001 376686000195 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686000196 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_15; cd07264 376686000197 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 376686000198 DNA recombination protein RmuC; Provisional; Region: PRK10361 376686000199 RmuC family; Region: RmuC; pfam02646 376686000200 PrcB C-terminal; Region: PrcB_C; pfam14343 376686000201 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 376686000202 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686000203 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 376686000204 DNA binding residues [nucleotide binding] 376686000205 MepB protein; Region: MepB; cl01985 376686000206 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 376686000207 putative catalytic site [active] 376686000208 putative metal binding site [ion binding]; other site 376686000209 putative phosphate binding site [ion binding]; other site 376686000210 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686000211 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 376686000212 classical (c) SDRs; Region: SDR_c; cd05233 376686000213 NAD(P) binding site [chemical binding]; other site 376686000214 active site 376686000215 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 376686000216 pseudouridine synthase; Region: TIGR00093 376686000217 active site 376686000218 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 376686000219 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 376686000220 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 376686000221 Walker A/P-loop; other site 376686000222 ATP binding site [chemical binding]; other site 376686000223 Q-loop/lid; other site 376686000224 ABC transporter signature motif; other site 376686000225 Walker B; other site 376686000226 D-loop; other site 376686000227 H-loop/switch region; other site 376686000228 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; pfam13366 376686000229 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 376686000230 ABC-ATPase subunit interface; other site 376686000231 dimer interface [polypeptide binding]; other site 376686000232 putative PBP binding regions; other site 376686000233 Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_d; cd01141 376686000234 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 376686000235 putative ligand binding site [chemical binding]; other site 376686000236 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 376686000237 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 376686000238 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 376686000239 homotrimer interface [polypeptide binding]; other site 376686000240 Walker A motif; other site 376686000241 GTP binding site [chemical binding]; other site 376686000242 Walker B motif; other site 376686000243 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 376686000244 FMN binding site [chemical binding]; other site 376686000245 dimer interface [polypeptide binding]; other site 376686000246 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 376686000247 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 376686000248 putative dimer interface [polypeptide binding]; other site 376686000249 active site pocket [active] 376686000250 putative cataytic base [active] 376686000251 Transposase IS200 like; Region: Y1_Tnp; cl00848 376686000252 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 376686000253 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 376686000254 catalytic core [active] 376686000255 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 376686000256 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 376686000257 N-terminal plug; other site 376686000258 ligand-binding site [chemical binding]; other site 376686000259 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 376686000260 carboxyl-terminal processing protease; Provisional; Region: PLN00049 376686000261 C-terminal processing peptidase-like; serine protease family S41; Region: Peptidase_S41_CPP_like; cd07561 376686000262 Catalytic dyad [active] 376686000263 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 376686000264 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686000265 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 376686000266 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 376686000267 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 376686000268 Predicted membrane protein [Function unknown]; Region: COG4682 376686000269 yiaA/B two helix domain; Region: YiaAB; cl01759 376686000270 yiaA/B two helix domain; Region: YiaAB; cl01759 376686000271 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 376686000272 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 376686000273 ATP-grasp domain; Region: ATP-grasp_4; cl03087 376686000274 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 376686000275 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 376686000276 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 376686000277 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 376686000278 ATP-grasp domain; Region: ATP-grasp_4; cl03087 376686000279 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 376686000280 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 376686000281 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 376686000282 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 376686000283 transmembrane helices; other site 376686000284 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 376686000285 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 376686000286 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 376686000287 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 376686000288 ABC transporter; Region: ABC_tran_2; pfam12848 376686000289 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 376686000290 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 376686000291 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 376686000292 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: alt_bact_glmU; TIGR03991 376686000293 Sugar nucleotidyl transferase; Region: NTP_transf_4; pfam13562 376686000294 Uncharacterized proteins, Left-handed parallel beta-Helix (LbH) domain: Members in this group are uncharacterized bacterial proteins containing a LbH domain with multiple turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif...; Region: LbH_unknown; cd05635 376686000295 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 376686000296 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 376686000297 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 376686000298 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 376686000299 Ligand binding site; other site 376686000300 Putative Catalytic site; other site 376686000301 DXD motif; other site 376686000302 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 376686000303 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 376686000304 active site 376686000305 substrate binding site [chemical binding]; other site 376686000306 metal binding site [ion binding]; metal-binding site 376686000307 Helix-turn-helix domains; Region: HTH; cl00088 376686000308 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 376686000309 dimer interface [polypeptide binding]; other site 376686000310 FMN binding site [chemical binding]; other site 376686000311 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 376686000312 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 376686000313 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 376686000314 Walker A/P-loop; other site 376686000315 ATP binding site [chemical binding]; other site 376686000316 Q-loop/lid; other site 376686000317 ABC transporter signature motif; other site 376686000318 Walker B; other site 376686000319 D-loop; other site 376686000320 H-loop/switch region; other site 376686000321 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 376686000322 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686000323 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686000324 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 376686000325 Peptidase family M23; Region: Peptidase_M23; pfam01551 376686000326 Cell division protein ZapA; Region: ZapA; cl01146 376686000327 phosphodiesterase; Provisional; Region: PRK12704 376686000328 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 376686000329 hypothetical protein; Provisional; Region: PRK13560 376686000330 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 376686000331 PAS fold; Region: PAS_3; pfam08447 376686000332 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 376686000333 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686000334 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 376686000335 ATP binding site [chemical binding]; other site 376686000336 Mg2+ binding site [ion binding]; other site 376686000337 G-X-G motif; other site 376686000338 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 376686000339 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 376686000340 Int/Topo IB signature motif; other site 376686000341 active site 376686000342 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 376686000343 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 376686000344 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 376686000345 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 376686000346 trimer interface [polypeptide binding]; other site 376686000347 active site 376686000348 dimer interface [polypeptide binding]; other site 376686000349 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686000350 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 376686000351 Cation efflux family; Region: Cation_efflux; cl00316 376686000352 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 376686000353 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 376686000354 hinge; other site 376686000355 active site 376686000356 Domain of unknown function (DUF4290); Region: DUF4290; pfam14123 376686000357 Protein of unknown function (DUF493); Region: DUF493; cl01102 376686000358 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 376686000359 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 376686000360 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686000361 AAA domain; Region: AAA_28; pfam13521 376686000362 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 376686000363 ATP binding site [chemical binding]; other site 376686000364 putative Mg++ binding site [ion binding]; other site 376686000365 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 376686000366 nucleotide binding region [chemical binding]; other site 376686000367 ATP-binding site [chemical binding]; other site 376686000368 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 376686000369 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 376686000370 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 376686000371 putative active site [active] 376686000372 substrate binding site [chemical binding]; other site 376686000373 putative cosubstrate binding site; other site 376686000374 catalytic site [active] 376686000375 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 376686000376 substrate binding site [chemical binding]; other site 376686000377 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 376686000378 IHF - DNA interface [nucleotide binding]; other site 376686000379 IHF dimer interface [polypeptide binding]; other site 376686000380 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 376686000381 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; cd00449 376686000382 homodimer interface [polypeptide binding]; other site 376686000383 substrate-cofactor binding pocket; other site 376686000384 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686000385 catalytic residue [active] 376686000386 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 376686000387 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 376686000388 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 376686000389 DNA-binding site [nucleotide binding]; DNA binding site 376686000390 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 376686000391 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686000392 homodimer interface [polypeptide binding]; other site 376686000393 catalytic residue [active] 376686000394 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 376686000395 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686000396 Coenzyme A binding pocket [chemical binding]; other site 376686000397 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 376686000398 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686000399 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 376686000400 DNA binding residues [nucleotide binding] 376686000401 FecR protein; Region: FecR; pfam04773 376686000402 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686000403 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 376686000404 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 376686000405 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 376686000406 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 376686000407 NADP binding site [chemical binding]; other site 376686000408 putative substrate binding site [chemical binding]; other site 376686000409 active site 376686000410 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686000411 NAD(P) binding site [chemical binding]; other site 376686000412 active site 376686000413 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 376686000414 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 376686000415 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686000416 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 376686000417 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 376686000418 active site 376686000419 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 376686000420 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686000421 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 376686000422 DNA binding residues [nucleotide binding] 376686000423 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 376686000424 FecR protein; Region: FecR; pfam04773 376686000425 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4315 376686000426 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 376686000427 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 376686000428 Cytochrome c; Region: Cytochrom_C; cl11414 376686000429 YceI-like domain; Region: YceI; cl01001 376686000430 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 376686000431 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 376686000432 active site 376686000433 catalytic tetrad [active] 376686000434 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686000435 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686000436 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 376686000437 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686000438 active site 376686000439 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 376686000440 DNA binding residues [nucleotide binding] 376686000441 dimerization interface [polypeptide binding]; other site 376686000442 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 376686000443 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 376686000444 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 376686000445 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 376686000446 FeS/SAM binding site; other site 376686000447 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686000448 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686000449 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 376686000450 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 376686000451 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 376686000452 starch binding outer membrane protein SusD; Region: SusD; cl15876 376686000453 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686000454 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686000455 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 376686000456 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 376686000457 MFS transport protein AraJ; Provisional; Region: PRK10091 376686000458 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 376686000459 putative substrate translocation pore; other site 376686000460 Cupin domain; Region: Cupin_2; cl09118 376686000461 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 376686000462 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686000463 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 376686000464 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 376686000465 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686000466 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686000467 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 376686000468 metal-binding site [ion binding] 376686000469 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 376686000470 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 376686000471 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 376686000472 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 376686000473 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 376686000474 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 376686000475 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 376686000476 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 376686000477 active site 2 [active] 376686000478 active site 1 [active] 376686000479 Tic20-like protein; Region: Tic20; pfam09685 376686000480 Helix-turn-helix domains; Region: HTH; cl00088 376686000481 PspC domain; Region: PspC; cl00864 376686000482 DoxX; Region: DoxX; cl00976 376686000483 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 376686000484 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 376686000485 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 376686000486 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 376686000487 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 376686000488 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 376686000489 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 376686000490 P-loop; other site 376686000491 Magnesium ion binding site [ion binding]; other site 376686000492 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 376686000493 Magnesium ion binding site [ion binding]; other site 376686000494 ParB-like partition proteins; Region: parB_part; TIGR00180 376686000495 ParB-like nuclease domain; Region: ParBc; cl02129 376686000496 dihydrodipicolinate reductase; Provisional; Region: PRK00048 376686000497 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686000498 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 376686000499 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 376686000500 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 376686000501 Catalytic site [active] 376686000502 signal peptidase I; Provisional; Region: PRK10861 376686000503 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 376686000504 WbqC-like protein family; Region: WbqC; pfam08889 376686000505 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 376686000506 putative catalytic site [active] 376686000507 putative metal binding site [ion binding]; other site 376686000508 putative phosphate binding site [ion binding]; other site 376686000509 Rhomboid family; Region: Rhomboid; cl11446 376686000510 Putative cell-wall binding lipoprotein; Region: YkyA; pfam10368 376686000511 Rhomboid family; Region: Rhomboid; cl11446 376686000512 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 376686000513 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 376686000514 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 376686000515 ATP binding site [chemical binding]; other site 376686000516 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 376686000517 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 376686000518 homopentamer interface [polypeptide binding]; other site 376686000519 active site 376686000520 recombination protein F; Reviewed; Region: recF; PRK00064 376686000521 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686000522 Walker A/P-loop; other site 376686000523 ATP binding site [chemical binding]; other site 376686000524 Q-loop/lid; other site 376686000525 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686000526 ABC transporter signature motif; other site 376686000527 Walker B; other site 376686000528 D-loop; other site 376686000529 H-loop/switch region; other site 376686000530 Conserved hypothetical protein (DUF2461); Region: DUF2461; cl02374 376686000531 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 376686000532 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 376686000533 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 376686000534 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686000535 homodimer interface [polypeptide binding]; other site 376686000536 catalytic residue [active] 376686000537 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 376686000538 FAD binding domain; Region: FAD_binding_4; pfam01565 376686000539 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 376686000540 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 376686000541 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686000542 Coenzyme A binding pocket [chemical binding]; other site 376686000543 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 376686000544 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 376686000545 active site 376686000546 RNA polymerase sigma factor; Provisional; Region: PRK11924 376686000547 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686000548 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 376686000549 DNA binding residues [nucleotide binding] 376686000550 Gram-negative bacterial tonB protein; Region: TonB; cl10048 376686000551 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 376686000552 Peptidase family M48; Region: Peptidase_M48; cl12018 376686000553 Peptidase family M48; Region: Peptidase_M48; cl12018 376686000554 lipoyl synthase; Provisional; Region: PRK05481 376686000555 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 376686000556 FeS/SAM binding site; other site 376686000557 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686000558 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 376686000559 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 376686000560 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 376686000561 binding surface 376686000562 TPR motif; other site 376686000563 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 376686000564 binding surface 376686000565 TPR motif; other site 376686000566 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 376686000567 dimer interface [polypeptide binding]; other site 376686000568 phosphorylation site [posttranslational modification] 376686000569 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 376686000570 ATP binding site [chemical binding]; other site 376686000571 Mg2+ binding site [ion binding]; other site 376686000572 G-X-G motif; other site 376686000573 Response regulator receiver domain; Region: Response_reg; pfam00072 376686000574 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 376686000575 active site 376686000576 phosphorylation site [posttranslational modification] 376686000577 intermolecular recognition site; other site 376686000578 dimerization interface [polypeptide binding]; other site 376686000579 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 376686000580 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 376686000581 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 376686000582 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 376686000583 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 376686000584 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 376686000585 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 376686000586 Putative zinc ribbon domain; Region: DUF164; pfam02591 376686000587 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 376686000588 Secretory lipase; Region: LIP; pfam03583 376686000589 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 376686000590 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 376686000591 RNA binding surface [nucleotide binding]; other site 376686000592 PseudoU_synth_RluF_like: Pseudouridine synthase, Escherichia coli RluF like. This group is comprised of bacterial proteins similar to Escherichia coli RluF. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluF; cd02554 376686000593 probable active site [active] 376686000594 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 376686000595 Trp docking motif [polypeptide binding]; other site 376686000596 PQQ-like domain; Region: PQQ_2; pfam13360 376686000597 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 376686000598 Trp docking motif [polypeptide binding]; other site 376686000599 active site 376686000600 Domain of unknown function (DUF4173); Region: DUF4173; pfam13777 376686000601 Helix-turn-helix domains; Region: HTH; cl00088 376686000602 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686000603 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 376686000604 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 376686000605 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 376686000606 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14185 376686000607 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 376686000608 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 376686000609 homodimer interface [polypeptide binding]; other site 376686000610 NADP binding site [chemical binding]; other site 376686000611 substrate binding site [chemical binding]; other site 376686000612 signal recognition particle protein; Provisional; Region: PRK10867 376686000613 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 376686000614 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 376686000615 P loop; other site 376686000616 GTP binding site [chemical binding]; other site 376686000617 Signal peptide binding domain; Region: SRP_SPB; pfam02978 376686000618 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 376686000619 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 376686000620 putative peptidoglycan binding site; other site 376686000621 SGNH_peri1; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri1; cd01825 376686000622 active site 376686000623 oxyanion hole [active] 376686000624 catalytic triad [active] 376686000625 SGNH_peri1; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri1; cd01825 376686000626 active site 376686000627 catalytic triad [active] 376686000628 oxyanion hole [active] 376686000629 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY_like; cd07472 376686000630 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 376686000631 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 376686000632 N-terminal plug; other site 376686000633 ligand-binding site [chemical binding]; other site 376686000634 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 376686000635 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 376686000636 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 376686000637 active site 376686000638 HIGH motif; other site 376686000639 nucleotide binding site [chemical binding]; other site 376686000640 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 376686000641 KMSK motif region; other site 376686000642 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 376686000643 tRNA binding surface [nucleotide binding]; other site 376686000644 anticodon binding site; other site 376686000645 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686000646 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686000647 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 376686000648 CutC family; Region: CutC; cl01218 376686000649 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 376686000650 GIY-YIG motif/motif A; other site 376686000651 putative active site [active] 376686000652 putative metal binding site [ion binding]; other site 376686000653 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 376686000654 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 376686000655 dimer interface [polypeptide binding]; other site 376686000656 active site 376686000657 CoA binding pocket [chemical binding]; other site 376686000658 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 376686000659 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686000660 Walker A/P-loop; other site 376686000661 ATP binding site [chemical binding]; other site 376686000662 Q-loop/lid; other site 376686000663 ABC transporter signature motif; other site 376686000664 Walker B; other site 376686000665 D-loop; other site 376686000666 H-loop/switch region; other site 376686000667 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686000668 ligand binding site [chemical binding]; other site 376686000669 heat shock protein 90; Provisional; Region: PRK05218 376686000670 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 376686000671 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 376686000672 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 376686000673 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 376686000674 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 376686000675 catalytic triad [active] 376686000676 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 376686000677 active site 376686000678 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 376686000679 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 376686000680 active site 376686000681 metal binding site [ion binding]; metal-binding site 376686000682 nudix motif; other site 376686000683 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 376686000684 SelR domain; Region: SelR; pfam01641 376686000685 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 376686000686 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 376686000687 YCII-related domain; Region: YCII; cl00999 376686000688 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 376686000689 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686000690 META domain; Region: META; cl01245 376686000691 proline aminopeptidase P II; Provisional; Region: PRK10879 376686000692 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 376686000693 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 376686000694 active site 376686000695 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 376686000696 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 376686000697 NADP binding site [chemical binding]; other site 376686000698 dimer interface [polypeptide binding]; other site 376686000699 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 376686000700 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686000701 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 376686000702 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 376686000703 ATP binding site [chemical binding]; other site 376686000704 putative Mg++ binding site [ion binding]; other site 376686000705 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 376686000706 nucleotide binding region [chemical binding]; other site 376686000707 ATP-binding site [chemical binding]; other site 376686000708 RQC domain; Region: RQC; cl09632 376686000709 HRDC domain; Region: HRDC; cl02578 376686000710 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 376686000711 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 376686000712 putative active site [active] 376686000713 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 376686000714 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 376686000715 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 376686000716 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 376686000717 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 376686000718 Walker A/P-loop; other site 376686000719 ATP binding site [chemical binding]; other site 376686000720 Q-loop/lid; other site 376686000721 ABC transporter signature motif; other site 376686000722 Walker B; other site 376686000723 D-loop; other site 376686000724 H-loop/switch region; other site 376686000725 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 376686000726 YegX is an uncharacterized bacterial protein with a glycosyl hydrolase family 25 (GH25) catalytic domain that is similar in sequence to the CH-type (Chalaropsis-type) lysozymes of the GH25 family of endolysins; Region: GH25_YegX-like; cd06524 376686000727 active site 376686000728 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 376686000729 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 376686000730 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 376686000731 Bacterial sugar transferase; Region: Bac_transf; cl00939 376686000732 O-Antigen ligase; Region: Wzy_C; cl04850 376686000733 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686000734 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 376686000735 putative ADP-binding pocket [chemical binding]; other site 376686000736 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686000737 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 376686000738 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 376686000739 trimer interface [polypeptide binding]; other site 376686000740 active site 376686000741 substrate binding site [chemical binding]; other site 376686000742 CoA binding site [chemical binding]; other site 376686000743 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 376686000744 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 376686000745 active site 376686000746 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 376686000747 Rft protein; Region: Rft-1; pfam04506 376686000748 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 376686000749 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 376686000750 active site 376686000751 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686000752 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 376686000753 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 376686000754 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 376686000755 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 376686000756 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 376686000757 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 376686000758 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 376686000759 active site 376686000760 homodimer interface [polypeptide binding]; other site 376686000761 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 376686000762 NeuB family; Region: NeuB; cl00496 376686000763 SAF domain; Region: SAF; cl00555 376686000764 OpgC protein; Region: OpgC_C; cl00792 376686000765 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 376686000766 ligand binding site; other site 376686000767 tetramer interface; other site 376686000768 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 376686000769 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 376686000770 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 376686000771 active site 376686000772 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 376686000773 metal-binding site 376686000774 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 376686000775 active site 376686000776 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 376686000777 Glycosyl transferase family 11; Region: Glyco_transf_11; pfam01531 376686000778 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 376686000779 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 376686000780 active site 376686000781 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 376686000782 active site 376686000783 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 376686000784 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 376686000785 active site 376686000786 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 376686000787 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 376686000788 active site 376686000789 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 376686000790 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 376686000791 active site 376686000792 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686000793 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 376686000794 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 376686000795 putative trimer interface [polypeptide binding]; other site 376686000796 putative CoA binding site [chemical binding]; other site 376686000797 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686000798 WbqC-like protein family; Region: WbqC; pfam08889 376686000799 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 376686000800 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 376686000801 inhibitor-cofactor binding pocket; inhibition site 376686000802 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686000803 catalytic residue [active] 376686000804 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686000805 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 376686000806 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 376686000807 Walker A/P-loop; other site 376686000808 ATP binding site [chemical binding]; other site 376686000809 Q-loop/lid; other site 376686000810 ABC transporter signature motif; other site 376686000811 Walker B; other site 376686000812 D-loop; other site 376686000813 H-loop/switch region; other site 376686000814 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686000815 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 376686000816 ABC-2 type transporter; Region: ABC2_membrane; cl11417 376686000817 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 376686000818 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 376686000819 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 376686000820 NAD(P) binding site [chemical binding]; other site 376686000821 homodimer interface [polypeptide binding]; other site 376686000822 substrate binding site [chemical binding]; other site 376686000823 active site 376686000824 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 376686000825 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 376686000826 NADP binding site [chemical binding]; other site 376686000827 active site 376686000828 putative substrate binding site [chemical binding]; other site 376686000829 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 376686000830 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 376686000831 NADP-binding site; other site 376686000832 homotetramer interface [polypeptide binding]; other site 376686000833 substrate binding site [chemical binding]; other site 376686000834 homodimer interface [polypeptide binding]; other site 376686000835 active site 376686000836 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 376686000837 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 376686000838 substrate binding site; other site 376686000839 tetramer interface; other site 376686000840 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 376686000841 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 376686000842 NADP binding site [chemical binding]; other site 376686000843 active site 376686000844 putative substrate binding site [chemical binding]; other site 376686000845 Cupin domain; Region: Cupin_2; cl09118 376686000846 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 376686000847 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 376686000848 inhibitor-cofactor binding pocket; inhibition site 376686000849 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686000850 catalytic residue [active] 376686000851 Cupin domain; Region: Cupin_2; cl09118 376686000852 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 376686000853 Mg++ binding site [ion binding]; other site 376686000854 putative catalytic motif [active] 376686000855 putative substrate binding site [chemical binding]; other site 376686000856 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 376686000857 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686000858 NAD(P) binding site [chemical binding]; other site 376686000859 active site 376686000860 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686000861 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 376686000862 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686000863 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 376686000864 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 376686000865 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 376686000866 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 376686000867 active site 376686000868 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686000869 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 376686000870 WavE lipopolysaccharide synthesis; Region: WavE; pfam07507 376686000871 GT2_BcbE_like is likely involved in the biosynthesis of the polysaccharide capsule; Region: GT2_BcE_like; cd04183 376686000872 Ligand binding site; other site 376686000873 GT2_BcbE_like is likely involved in the biosynthesis of the polysaccharide capsule; Region: GT2_BcE_like; cd04183 376686000874 Ligand binding site; other site 376686000875 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 376686000876 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 376686000877 motif II; other site 376686000878 Uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipaseand Glycerophosphodiester phosphodiesterases; Region: PI-PLCc_GDPD_SF_unchar2; cd08584 376686000879 putative active site [active] 376686000880 catalytic site [active] 376686000881 Chain length determinant protein; Region: Wzz; cl15801 376686000882 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 376686000883 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 376686000884 SLBB domain; Region: SLBB; pfam10531 376686000885 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 376686000886 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 376686000887 SLBB domain; Region: SLBB; pfam10531 376686000888 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 376686000889 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 376686000890 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 376686000891 NAD binding site [chemical binding]; other site 376686000892 substrate binding site [chemical binding]; other site 376686000893 homodimer interface [polypeptide binding]; other site 376686000894 active site 376686000895 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 376686000896 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 376686000897 Substrate binding site; other site 376686000898 Cupin domain; Region: Cupin_2; cl09118 376686000899 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 376686000900 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686000901 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 376686000902 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686000903 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 376686000904 probable UDP-glucose 6-dehydrogenase; Region: PLN02353 376686000905 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686000906 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 376686000907 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686000908 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 376686000909 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 376686000910 NAD binding site [chemical binding]; other site 376686000911 substrate binding site [chemical binding]; other site 376686000912 homodimer interface [polypeptide binding]; other site 376686000913 active site 376686000914 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 376686000915 Chain length determinant protein; Region: Wzz; cl15801 376686000916 exopolysaccharide/PEPCTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 376686000917 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 376686000918 Nucleotide binding site [chemical binding]; other site 376686000919 P loop; other site 376686000920 DTAP/Switch II; other site 376686000921 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 376686000922 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 376686000923 recombination protein RecR; Reviewed; Region: recR; PRK00076 376686000924 RecR protein; Region: RecR; pfam02132 376686000925 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 376686000926 putative active site [active] 376686000927 putative metal-binding site [ion binding]; other site 376686000928 tetramer interface [polypeptide binding]; other site 376686000929 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686000930 MarC family integral membrane protein; Region: MarC; cl00919 376686000931 Amidinotransferase; Region: Amidinotransf; cl12043 376686000932 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 376686000933 Amidinotransferase; Region: Amidinotransf; cl12043 376686000934 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 376686000935 dimer interface [polypeptide binding]; other site 376686000936 Citrate synthase; Region: Citrate_synt; pfam00285 376686000937 active site 376686000938 citrylCoA binding site [chemical binding]; other site 376686000939 NADH binding [chemical binding]; other site 376686000940 cationic pore residues; other site 376686000941 oxalacetate/citrate binding site [chemical binding]; other site 376686000942 coenzyme A binding site [chemical binding]; other site 376686000943 catalytic triad [active] 376686000944 enolase; Provisional; Region: eno; PRK00077 376686000945 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 376686000946 dimer interface [polypeptide binding]; other site 376686000947 metal binding site [ion binding]; metal-binding site 376686000948 substrate binding pocket [chemical binding]; other site 376686000949 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 376686000950 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 376686000951 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 376686000952 catalytic site [active] 376686000953 subunit interface [polypeptide binding]; other site 376686000954 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 376686000955 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 376686000956 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 376686000957 alphaNTD homodimer interface [polypeptide binding]; other site 376686000958 alphaNTD - beta interaction site [polypeptide binding]; other site 376686000959 alphaNTD - beta' interaction site [polypeptide binding]; other site 376686000960 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 376686000961 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 376686000962 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 376686000963 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 376686000964 RNA binding surface [nucleotide binding]; other site 376686000965 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 376686000966 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 376686000967 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 376686000968 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 376686000969 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 376686000970 rRNA binding site [nucleotide binding]; other site 376686000971 predicted 30S ribosome binding site; other site 376686000972 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 376686000973 SecY translocase; Region: SecY; pfam00344 376686000974 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 376686000975 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 376686000976 23S rRNA binding site [nucleotide binding]; other site 376686000977 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 376686000978 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 376686000979 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 376686000980 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 376686000981 23S rRNA interface [nucleotide binding]; other site 376686000982 L21e interface [polypeptide binding]; other site 376686000983 5S rRNA interface [nucleotide binding]; other site 376686000984 L27 interface [polypeptide binding]; other site 376686000985 L5 interface [polypeptide binding]; other site 376686000986 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 376686000987 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 376686000988 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 376686000989 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 376686000990 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 376686000991 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 376686000992 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 376686000993 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 376686000994 KOW motif; Region: KOW; cl00354 376686000995 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 376686000996 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 376686000997 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 376686000998 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 376686000999 23S rRNA interface [nucleotide binding]; other site 376686001000 putative translocon interaction site; other site 376686001001 signal recognition particle (SRP54) interaction site; other site 376686001002 L23 interface [polypeptide binding]; other site 376686001003 trigger factor interaction site; other site 376686001004 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 376686001005 23S rRNA interface [nucleotide binding]; other site 376686001006 5S rRNA interface [nucleotide binding]; other site 376686001007 putative antibiotic binding site [chemical binding]; other site 376686001008 L25 interface [polypeptide binding]; other site 376686001009 L27 interface [polypeptide binding]; other site 376686001010 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 376686001011 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 376686001012 G-X-X-G motif; other site 376686001013 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 376686001014 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 376686001015 putative translocon binding site; other site 376686001016 protein-rRNA interface [nucleotide binding]; other site 376686001017 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 376686001018 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 376686001019 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 376686001020 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 376686001021 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 376686001022 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 376686001023 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 376686001024 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 376686001025 elongation factor G; Reviewed; Region: PRK12739 376686001026 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 376686001027 G1 box; other site 376686001028 putative GEF interaction site [polypeptide binding]; other site 376686001029 GTP/Mg2+ binding site [chemical binding]; other site 376686001030 Switch I region; other site 376686001031 G2 box; other site 376686001032 G3 box; other site 376686001033 Switch II region; other site 376686001034 G4 box; other site 376686001035 G5 box; other site 376686001036 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 376686001037 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 376686001038 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 376686001039 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 376686001040 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 376686001041 S17 interaction site [polypeptide binding]; other site 376686001042 S8 interaction site; other site 376686001043 16S rRNA interaction site [nucleotide binding]; other site 376686001044 streptomycin interaction site [chemical binding]; other site 376686001045 23S rRNA interaction site [nucleotide binding]; other site 376686001046 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 376686001047 Surface antigen; Region: Bac_surface_Ag; cl03097 376686001048 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686001049 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686001050 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 376686001051 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 376686001052 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 376686001053 starch binding outer membrane protein SusD; Region: SusD; cl15876 376686001054 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 376686001055 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 376686001056 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 376686001057 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 376686001058 Rhomboid family; Region: Rhomboid; cl11446 376686001059 recombination factor protein RarA; Reviewed; Region: PRK13342 376686001060 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 376686001061 Walker A motif; other site 376686001062 ATP binding site [chemical binding]; other site 376686001063 Walker B motif; other site 376686001064 arginine finger; other site 376686001065 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 376686001066 dUMP phosphatase; Provisional; Region: PRK09449 376686001067 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 376686001068 motif II; other site 376686001069 hypothetical protein; Reviewed; Region: PRK00024 376686001070 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 376686001071 MPN+ (JAMM) motif; other site 376686001072 Zinc-binding site [ion binding]; other site 376686001073 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 376686001074 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 376686001075 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 376686001076 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 376686001077 MG2 domain; Region: A2M_N; pfam01835 376686001078 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686001079 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 376686001080 Alpha-2-macroglobulin family; Region: A2M; pfam00207 376686001081 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 376686001082 Peptidase S46; Region: Peptidase_S46; pfam10459 376686001083 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 376686001084 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 376686001085 GTPase CgtA; Reviewed; Region: obgE; PRK12299 376686001086 GTP1/OBG; Region: GTP1_OBG; pfam01018 376686001087 Obg GTPase; Region: Obg; cd01898 376686001088 G1 box; other site 376686001089 GTP/Mg2+ binding site [chemical binding]; other site 376686001090 Switch I region; other site 376686001091 G2 box; other site 376686001092 G3 box; other site 376686001093 Switch II region; other site 376686001094 G4 box; other site 376686001095 G5 box; other site 376686001096 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 376686001097 Domain of unknown function DUF21; Region: DUF21; pfam01595 376686001098 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 376686001099 Transporter associated domain; Region: CorC_HlyC; cl08393 376686001100 adenylate kinase; Reviewed; Region: adk; PRK00279 376686001101 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 376686001102 AMP-binding site [chemical binding]; other site 376686001103 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 376686001104 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 376686001105 active site 376686001106 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 376686001107 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 376686001108 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 376686001109 N-terminal plug; other site 376686001110 ligand-binding site [chemical binding]; other site 376686001111 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 376686001112 ATP-grasp domain; Region: ATP-grasp_4; cl03087 376686001113 AIR carboxylase; Region: AIRC; cl00310 376686001114 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 376686001115 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 376686001116 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 376686001117 active site 376686001118 Zn binding site [ion binding]; other site 376686001119 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 376686001120 putative active site [active] 376686001121 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 376686001122 HicB family; Region: HicB; pfam05534 376686001123 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 376686001124 potassium/proton antiporter; Reviewed; Region: PRK05326 376686001125 Domain of unknown function (DUF1842); Region: DUF1842; pfam08896 376686001126 Predicted transcriptional regulators [Transcription]; Region: COG1510 376686001127 Helix-turn-helix domains; Region: HTH; cl00088 376686001128 Uncharacterized conserved protein (COG2071); Region: DUF2071; cl01329 376686001129 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686001130 TIGR01777 family protein; Region: yfcH 376686001131 NAD(P) binding site [chemical binding]; other site 376686001132 active site 376686001133 glycine dehydrogenase; Provisional; Region: PRK05367 376686001134 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 376686001135 tetramer interface [polypeptide binding]; other site 376686001136 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686001137 catalytic residue [active] 376686001138 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 376686001139 tetramer interface [polypeptide binding]; other site 376686001140 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686001141 catalytic residue [active] 376686001142 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 376686001143 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 376686001144 dimer interface [polypeptide binding]; other site 376686001145 active site 376686001146 CoA binding pocket [chemical binding]; other site 376686001147 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686001148 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 376686001149 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 376686001150 DXD motif; other site 376686001151 Permease; Region: Permease; cl00510 376686001152 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 376686001153 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 376686001154 Walker A/P-loop; other site 376686001155 ATP binding site [chemical binding]; other site 376686001156 Q-loop/lid; other site 376686001157 ABC transporter signature motif; other site 376686001158 Walker B; other site 376686001159 D-loop; other site 376686001160 H-loop/switch region; other site 376686001161 SprT-like family; Region: SprT-like; pfam10263 376686001162 SprT homologues; Region: SprT; cl01182 376686001163 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 376686001164 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 376686001165 classical (c) SDRs; Region: SDR_c; cd05233 376686001166 NAD(P) binding site [chemical binding]; other site 376686001167 active site 376686001168 M28 Zn-Peptidase IAP aminopeptidase may contain PA domain insert; Region: M28_like_5; cd08021 376686001169 metal binding site [ion binding]; metal-binding site 376686001170 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 376686001171 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 376686001172 FAD binding site [chemical binding]; other site 376686001173 homotetramer interface [polypeptide binding]; other site 376686001174 substrate binding pocket [chemical binding]; other site 376686001175 catalytic base [active] 376686001176 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 376686001177 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 376686001178 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686001179 NAD(P) binding pocket [chemical binding]; other site 376686001180 Gram-negative bacterial tonB protein; Region: TonB; cl10048 376686001181 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 376686001182 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 376686001183 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 376686001184 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 376686001185 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 376686001186 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1, 4-benzoquinol methylase [Coenzyme metabolism]; Region: UbiG; COG2227 376686001187 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 376686001188 S-adenosylmethionine binding site [chemical binding]; other site 376686001189 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 376686001190 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686001191 active site 376686001192 metal binding site [ion binding]; metal-binding site 376686001193 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 376686001194 Helix-turn-helix domains; Region: HTH; cl00088 376686001195 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 376686001196 non-specific DNA binding site [nucleotide binding]; other site 376686001197 salt bridge; other site 376686001198 sequence-specific DNA binding site [nucleotide binding]; other site 376686001199 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 376686001200 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 376686001201 DNA binding residues [nucleotide binding] 376686001202 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 376686001203 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 376686001204 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 376686001205 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 376686001206 dimer interface [polypeptide binding]; other site 376686001207 phosphorylation site [posttranslational modification] 376686001208 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 376686001209 ATP binding site [chemical binding]; other site 376686001210 Mg2+ binding site [ion binding]; other site 376686001211 G-X-G motif; other site 376686001212 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 376686001213 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 376686001214 active site 376686001215 phosphorylation site [posttranslational modification] 376686001216 intermolecular recognition site; other site 376686001217 dimerization interface [polypeptide binding]; other site 376686001218 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 376686001219 Walker A motif; other site 376686001220 ATP binding site [chemical binding]; other site 376686001221 Walker B motif; other site 376686001222 arginine finger; other site 376686001223 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 376686001224 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 376686001225 Walker A/P-loop; other site 376686001226 ATP binding site [chemical binding]; other site 376686001227 Q-loop/lid; other site 376686001228 ABC transporter signature motif; other site 376686001229 Walker B; other site 376686001230 D-loop; other site 376686001231 H-loop/switch region; other site 376686001232 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 376686001233 FtsX-like permease family; Region: FtsX; cl15850 376686001234 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 376686001235 FtsX-like permease family; Region: FtsX; cl15850 376686001236 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 376686001237 FtsX-like permease family; Region: FtsX; cl15850 376686001238 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 376686001239 FtsX-like permease family; Region: FtsX; cl15850 376686001240 Porcine testicular carbonyl reductase (PTCR)-like, classical (c) SDRs; Region: carb_red_PTCR-like_SDR_c; cd05324 376686001241 short chain dehydrogenase; Provisional; Region: PRK12828 376686001242 NADP binding site [chemical binding]; other site 376686001243 substrate binding site [chemical binding]; other site 376686001244 active site 376686001245 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 376686001246 ligand binding site [chemical binding]; other site 376686001247 flexible hinge region; other site 376686001248 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686001249 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686001250 short chain dehydrogenase; Provisional; Region: PRK06180 376686001251 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 376686001252 NADP binding site [chemical binding]; other site 376686001253 active site 376686001254 steroid binding site; other site 376686001255 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cl00653 376686001256 Active_site [active] 376686001257 Protein of unknown function (DUF4256); Region: DUF4256; pfam14066 376686001258 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 376686001259 FtsX-like permease family; Region: FtsX; cl15850 376686001260 Flagellin N-methylase; Region: FliB; cl00497 376686001261 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 376686001262 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 376686001263 S-adenosylmethionine binding site [chemical binding]; other site 376686001264 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 376686001265 DinB superfamily; Region: DinB_2; pfam12867 376686001266 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 376686001267 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 376686001268 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 376686001269 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 376686001270 binding surface 376686001271 TPR motif; other site 376686001272 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 376686001273 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 376686001274 Gram-negative bacterial tonB protein; Region: TonB; cl10048 376686001275 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 376686001276 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 376686001277 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 376686001278 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686001279 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 376686001280 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686001281 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686001282 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 376686001283 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 376686001284 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686001285 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 376686001286 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 376686001287 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 376686001288 Tetratricopeptide repeat; Region: TPR_16; pfam13432 376686001289 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 376686001290 TPR motif; other site 376686001291 Penicillin amidase; Region: Penicil_amidase; pfam01804 376686001292 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 376686001293 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 376686001294 active site 376686001295 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 376686001296 kynureninase; Region: kynureninase; TIGR01814 376686001297 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 376686001298 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 376686001299 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 376686001300 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 376686001301 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 376686001302 hinge; other site 376686001303 active site 376686001304 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 376686001305 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 376686001306 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 376686001307 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 376686001308 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 376686001309 putative active site [active] 376686001310 dimerization interface [polypeptide binding]; other site 376686001311 putative tRNAtyr binding site [nucleotide binding]; other site 376686001312 GTPase RsgA; Reviewed; Region: PRK00098 376686001313 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 376686001314 RNA binding site [nucleotide binding]; other site 376686001315 homodimer interface [polypeptide binding]; other site 376686001316 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 376686001317 GTPase/Zn-binding domain interface [polypeptide binding]; other site 376686001318 GTP/Mg2+ binding site [chemical binding]; other site 376686001319 G4 box; other site 376686001320 G5 box; other site 376686001321 G1 box; other site 376686001322 Switch I region; other site 376686001323 G2 box; other site 376686001324 G3 box; other site 376686001325 Switch II region; other site 376686001326 NeuB family; Region: NeuB; cl00496 376686001327 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 376686001328 Chorismate mutase type II; Region: CM_2; cl00693 376686001329 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686001330 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 376686001331 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 376686001332 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 376686001333 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686001334 homodimer interface [polypeptide binding]; other site 376686001335 catalytic residue [active] 376686001336 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 376686001337 Prephenate dehydratase; Region: PDT; pfam00800 376686001338 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 376686001339 putative L-Phe binding site [chemical binding]; other site 376686001340 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 376686001341 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 376686001342 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 376686001343 ribonucleoside--diphosphate reductase large subunit; Region: PLN02437 376686001344 ATP cone domain; Region: ATP-cone; pfam03477 376686001345 Class I ribonucleotide reductase; Region: RNR_I; cd01679 376686001346 active site 376686001347 dimer interface [polypeptide binding]; other site 376686001348 catalytic residues [active] 376686001349 effector binding site; other site 376686001350 R2 peptide binding site; other site 376686001351 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 376686001352 dimer interface [polypeptide binding]; other site 376686001353 putative radical transfer pathway; other site 376686001354 diiron center [ion binding]; other site 376686001355 tyrosyl radical; other site 376686001356 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 376686001357 MarC family integral membrane protein; Region: MarC; cl00919 376686001358 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 376686001359 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686001360 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 376686001361 C-terminal peptidase (prc); Region: prc; TIGR00225 376686001362 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 376686001363 protein binding site [polypeptide binding]; other site 376686001364 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 376686001365 Catalytic dyad [active] 376686001366 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 376686001367 catalytic motif [active] 376686001368 Zn binding site [ion binding]; other site 376686001369 HupE / UreJ protein; Region: HupE_UreJ; cl01011 376686001370 tellurium resistance terB-like protein; Region: terB_like; cd07177 376686001371 metal binding site [ion binding]; metal-binding site 376686001372 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 376686001373 AMP binding site [chemical binding]; other site 376686001374 metal binding site [ion binding]; metal-binding site 376686001375 active site 376686001376 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 376686001377 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686001378 Coenzyme A binding pocket [chemical binding]; other site 376686001379 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 376686001380 putative catalytic residues [active] 376686001381 nucleotide binding site [chemical binding]; other site 376686001382 aspartate binding site [chemical binding]; other site 376686001383 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 376686001384 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 376686001385 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686001386 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686001387 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686001388 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686001389 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 376686001390 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 376686001391 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 376686001392 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 376686001393 dimer interface [polypeptide binding]; other site 376686001394 phosphorylation site [posttranslational modification] 376686001395 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 376686001396 ATP binding site [chemical binding]; other site 376686001397 Mg2+ binding site [ion binding]; other site 376686001398 G-X-G motif; other site 376686001399 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 376686001400 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 376686001401 active site 376686001402 phosphorylation site [posttranslational modification] 376686001403 intermolecular recognition site; other site 376686001404 dimerization interface [polypeptide binding]; other site 376686001405 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 376686001406 DNA binding site [nucleotide binding] 376686001407 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686001408 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 376686001409 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 376686001410 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 376686001411 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686001412 AMP-binding enzyme; Region: AMP-binding; cl15778 376686001413 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686001414 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 376686001415 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 376686001416 active site 376686001417 HIGH motif; other site 376686001418 dimer interface [polypeptide binding]; other site 376686001419 KMSKS motif; other site 376686001420 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686001421 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 376686001422 NAD(P) binding site [chemical binding]; other site 376686001423 active site 376686001424 Domain of unknown function (DUF4296); Region: DUF4296; pfam14129 376686001425 dihydroorotase; Reviewed; Region: PRK09236 376686001426 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 376686001427 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 376686001428 active site 376686001429 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 376686001430 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 376686001431 Ligand binding site; other site 376686001432 Putative Catalytic site; other site 376686001433 DXD motif; other site 376686001434 Domain of unknown function (DUF4271); Region: DUF4271; pfam14093 376686001435 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 376686001436 active site 376686001437 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 376686001438 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 376686001439 Helix-turn-helix domains; Region: HTH; cl00088 376686001440 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 376686001441 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 376686001442 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 376686001443 active site 376686001444 phosphorylation site [posttranslational modification] 376686001445 intermolecular recognition site; other site 376686001446 dimerization interface [polypeptide binding]; other site 376686001447 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 376686001448 DNA binding residues [nucleotide binding] 376686001449 dimerization interface [polypeptide binding]; other site 376686001450 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 376686001451 Histidine kinase; Region: HisKA_3; pfam07730 376686001452 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 376686001453 ATP binding site [chemical binding]; other site 376686001454 Mg2+ binding site [ion binding]; other site 376686001455 G-X-G motif; other site 376686001456 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 376686001457 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686001458 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 376686001459 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 376686001460 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 376686001461 aminoacyl-tRNA ligase; Region: PLN02563 376686001462 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 376686001463 active site 376686001464 HIGH motif; other site 376686001465 nucleotide binding site [chemical binding]; other site 376686001466 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 376686001467 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 376686001468 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 376686001469 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 376686001470 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 376686001471 active site 376686001472 KMSKS motif; other site 376686001473 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 376686001474 tRNA binding surface [nucleotide binding]; other site 376686001475 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 376686001476 Moco binding site; other site 376686001477 metal coordination site [ion binding]; other site 376686001478 FtsX-like permease family; Region: FtsX; cl15850 376686001479 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 376686001480 Bacitracin resistance protein BacA; Region: BacA; cl00858 376686001481 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 376686001482 RNA binding site [nucleotide binding]; other site 376686001483 active site 376686001484 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 376686001485 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 376686001486 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 376686001487 putative nucleotide binding site [chemical binding]; other site 376686001488 uridine monophosphate binding site [chemical binding]; other site 376686001489 homohexameric interface [polypeptide binding]; other site 376686001490 ribosome recycling factor; Reviewed; Region: frr; PRK00083 376686001491 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 376686001492 hinge region; other site 376686001493 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686001494 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 376686001495 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 376686001496 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 376686001497 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 376686001498 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686001499 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 376686001500 active site 376686001501 phosphorylation site [posttranslational modification] 376686001502 intermolecular recognition site; other site 376686001503 dimerization interface [polypeptide binding]; other site 376686001504 LytTr DNA-binding domain; Region: LytTR; cl04498 376686001505 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 376686001506 Histidine kinase; Region: His_kinase; pfam06580 376686001507 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 376686001508 Protein export membrane protein; Region: SecD_SecF; cl14618 376686001509 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 376686001510 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 376686001511 putative dimer interface [polypeptide binding]; other site 376686001512 putative anticodon binding site; other site 376686001513 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 376686001514 homodimer interface [polypeptide binding]; other site 376686001515 motif 1; other site 376686001516 motif 2; other site 376686001517 active site 376686001518 motif 3; other site 376686001519 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 376686001520 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 376686001521 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 376686001522 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 376686001523 thymidine kinase; Provisional; Region: PRK04296 376686001524 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 376686001525 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 376686001526 HopJ type III effector protein; Region: HopJ; pfam08888 376686001527 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 376686001528 DHH family; Region: DHH; pfam01368 376686001529 DHHA1 domain; Region: DHHA1; pfam02272 376686001530 enterobactin exporter EntS; Provisional; Region: PRK10489 376686001531 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 376686001532 putative substrate translocation pore; other site 376686001533 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 376686001534 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 376686001535 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 376686001536 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 376686001537 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 376686001538 putative active site [active] 376686001539 putative metal binding site [ion binding]; other site 376686001540 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 376686001541 active site 376686001542 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 376686001543 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 376686001544 substrate binding site [chemical binding]; other site 376686001545 oxyanion hole (OAH) forming residues; other site 376686001546 trimer interface [polypeptide binding]; other site 376686001547 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 376686001548 periplasmic chaperone; Provisional; Region: PRK10780 376686001549 leucine-rich repeat receptor-like protein kinase; Provisional; Region: PLN00113 376686001550 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 376686001551 FOG: PKD repeat [General function prediction only]; Region: COG3291 376686001552 polycystin cation channel protein; Region: PCC; TIGR00864 376686001553 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 376686001554 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686001555 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 376686001556 Substrate binding site [chemical binding]; other site 376686001557 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 376686001558 Leucine rich repeat; Region: LRR_8; pfam13855 376686001559 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 376686001560 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 376686001561 metal ion-dependent adhesion site (MIDAS); other site 376686001562 Thrombospondin type 3 repeat; Region: TSP_3; pfam02412 376686001563 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 376686001564 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 376686001565 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 376686001566 DNA binding site [nucleotide binding] 376686001567 Int/Topo IB signature motif; other site 376686001568 active site 376686001569 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 376686001570 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 376686001571 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 376686001572 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 376686001573 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 376686001574 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 376686001575 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 376686001576 Walker A motif; other site 376686001577 ATP binding site [chemical binding]; other site 376686001578 Walker B motif; other site 376686001579 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 376686001580 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 376686001581 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 376686001582 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 376686001583 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 376686001584 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 376686001585 non-specific DNA binding site [nucleotide binding]; other site 376686001586 salt bridge; other site 376686001587 sequence-specific DNA binding site [nucleotide binding]; other site 376686001588 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 376686001589 Transglycosylase; Region: Transgly; cl07896 376686001590 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 376686001591 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686001592 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 376686001593 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 376686001594 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 376686001595 dimer interface [polypeptide binding]; other site 376686001596 phosphorylation site [posttranslational modification] 376686001597 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 376686001598 ATP binding site [chemical binding]; other site 376686001599 Mg2+ binding site [ion binding]; other site 376686001600 G-X-G motif; other site 376686001601 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 376686001602 Response regulator receiver domain; Region: Response_reg; pfam00072 376686001603 active site 376686001604 phosphorylation site [posttranslational modification] 376686001605 intermolecular recognition site; other site 376686001606 dimerization interface [polypeptide binding]; other site 376686001607 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 376686001608 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 376686001609 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 376686001610 active site 376686001611 phosphorylation site [posttranslational modification] 376686001612 intermolecular recognition site; other site 376686001613 dimerization interface [polypeptide binding]; other site 376686001614 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 376686001615 Walker A motif; other site 376686001616 ATP binding site [chemical binding]; other site 376686001617 Walker B motif; other site 376686001618 arginine finger; other site 376686001619 Helix-turn-helix domains; Region: HTH; cl00088 376686001620 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 376686001621 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 376686001622 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 376686001623 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 376686001624 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 376686001625 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 376686001626 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 376686001627 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 376686001628 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 376686001629 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 376686001630 carboxyltransferase (CT) interaction site; other site 376686001631 biotinylation site [posttranslational modification]; other site 376686001632 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 376686001633 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 376686001634 dimer interface [polypeptide binding]; other site 376686001635 active site 376686001636 CoA binding pocket [chemical binding]; other site 376686001637 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 376686001638 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 376686001639 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 376686001640 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 376686001641 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 376686001642 Lumazine binding domain; Region: Lum_binding; pfam00677 376686001643 Lumazine binding domain; Region: Lum_binding; pfam00677 376686001644 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 376686001645 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 376686001646 cofactor binding site; other site 376686001647 DNA binding site [nucleotide binding] 376686001648 substrate interaction site [chemical binding]; other site 376686001649 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 376686001650 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 376686001651 mismatch recognition site; other site 376686001652 additional DNA contacts [nucleotide binding]; other site 376686001653 active site 376686001654 zinc binding site [ion binding]; other site 376686001655 DNA intercalation site [nucleotide binding]; other site 376686001656 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 376686001657 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686001658 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 376686001659 dimer interface [polypeptide binding]; other site 376686001660 substrate binding site [chemical binding]; other site 376686001661 metal binding site [ion binding]; metal-binding site 376686001662 Protein of unknown function (DUF3995); Region: DUF3995; pfam13160 376686001663 Bacterial Ig-like domain; Region: Big_5; cl01012 376686001664 Predicted amidohydrolase [General function prediction only]; Region: COG0388 376686001665 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 376686001666 putative active site [active] 376686001667 catalytic triad [active] 376686001668 multimer interface [polypeptide binding]; other site 376686001669 dimer interface [polypeptide binding]; other site 376686001670 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686001671 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686001672 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 376686001673 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 376686001674 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 376686001675 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686001676 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 376686001677 gluconate transporter; Region: gntP; TIGR00791 376686001678 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 376686001679 homotrimer interaction site [polypeptide binding]; other site 376686001680 putative active site [active] 376686001681 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 376686001682 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 376686001683 substrate binding site [chemical binding]; other site 376686001684 ATP binding site [chemical binding]; other site 376686001685 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 376686001686 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 376686001687 active site 376686001688 intersubunit interface [polypeptide binding]; other site 376686001689 catalytic residue [active] 376686001690 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme D-Threonine Aldolase; Region: PLPDE_III_D-TA; cd06821 376686001691 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 376686001692 dimer interface [polypeptide binding]; other site 376686001693 active site 376686001694 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 376686001695 substrate binding site [chemical binding]; other site 376686001696 catalytic residue [active] 376686001697 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 376686001698 active site 376686001699 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 376686001700 Helix-turn-helix domains; Region: HTH; cl00088 376686001701 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 376686001702 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 376686001703 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 376686001704 active site 376686001705 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 376686001706 PA14 domain; Region: PA14; cl08459 376686001707 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 376686001708 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 376686001709 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 376686001710 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686001711 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 376686001712 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 376686001713 putative Iron-sulfur protein interface [polypeptide binding]; other site 376686001714 proximal heme binding site [chemical binding]; other site 376686001715 distal heme binding site [chemical binding]; other site 376686001716 putative dimer interface [polypeptide binding]; other site 376686001717 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 376686001718 'initiating' condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are characterized by the...; Region: init_cond_enzymes; cd00827 376686001719 dimer interface [polypeptide binding]; other site 376686001720 active site 376686001721 LytTr DNA-binding domain; Region: LytTR; cl04498 376686001722 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 376686001723 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686001724 Coenzyme A binding pocket [chemical binding]; other site 376686001725 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 376686001726 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 376686001727 proline aminopeptidase P II; Provisional; Region: PRK10879 376686001728 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 376686001729 active site 376686001730 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 376686001731 Serine carboxypeptidase S28; Region: Peptidase_S28; cl15279 376686001732 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 376686001733 Ferritin-like domain; Region: Ferritin; pfam00210 376686001734 ferroxidase diiron center [ion binding]; other site 376686001735 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 376686001736 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 376686001737 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 376686001738 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 376686001739 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 376686001740 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 376686001741 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686001742 ligand binding site [chemical binding]; other site 376686001743 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 376686001744 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 376686001745 substrate-cofactor binding pocket; other site 376686001746 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686001747 catalytic residue [active] 376686001748 putative recombination protein RecB; Provisional; Region: PRK13909 376686001749 Family description; Region: UvrD_C_2; cl15862 376686001750 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 376686001751 lipoprotein signal peptidase; Provisional; Region: PRK14787 376686001752 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 376686001753 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 376686001754 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 376686001755 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 376686001756 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 376686001757 active site 376686001758 HIGH motif; other site 376686001759 nucleotide binding site [chemical binding]; other site 376686001760 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 376686001761 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 376686001762 active site 376686001763 KMSKS motif; other site 376686001764 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 376686001765 tRNA binding surface [nucleotide binding]; other site 376686001766 anticodon binding site; other site 376686001767 Recombination protein O N terminal; Region: RecO_N; cl15812 376686001768 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 376686001769 Recombination protein O C terminal; Region: RecO_C; pfam02565 376686001770 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 376686001771 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 376686001772 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686001773 glutamate dehydrogenase; Provisional; Region: PRK09414 376686001774 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 376686001775 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 376686001776 NAD(P) binding site [chemical binding]; other site 376686001777 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 376686001778 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 376686001779 homodimer interface [polypeptide binding]; other site 376686001780 substrate-cofactor binding pocket; other site 376686001781 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686001782 catalytic residue [active] 376686001783 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 376686001784 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 376686001785 Divergent AAA domain; Region: AAA_4; pfam04326 376686001786 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 376686001787 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686001788 NAD(P) binding site [chemical binding]; other site 376686001789 active site 376686001790 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 376686001791 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 376686001792 active site 376686001793 catalytic tetrad [active] 376686001794 MoxR-like ATPases [General function prediction only]; Region: COG0714 376686001795 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686001796 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 376686001797 metal ion-dependent adhesion site (MIDAS); other site 376686001798 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 376686001799 Oxygen tolerance; Region: BatD; pfam13584 376686001800 Aerotolerance regulator N-terminal; Region: BatA; cl06567 376686001801 VWA BatA type: 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...; Region: vWA_BatA_type; cd01467 376686001802 metal ion-dependent adhesion site (MIDAS); other site 376686001803 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 376686001804 metal ion-dependent adhesion site (MIDAS); other site 376686001805 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686001806 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 376686001807 Oxygen tolerance; Region: BatD; pfam13584 376686001808 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 376686001809 binding surface 376686001810 Tetratricopeptide repeat; Region: TPR_16; pfam13432 376686001811 TPR motif; other site 376686001812 Bacterial SH3 domain; Region: SH3_3; cl02551 376686001813 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 376686001814 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 376686001815 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 376686001816 putative active site [active] 376686001817 Zn binding site [ion binding]; other site 376686001818 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 376686001819 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 376686001820 GIY-YIG motif/motif A; other site 376686001821 active site 376686001822 catalytic site [active] 376686001823 putative DNA binding site [nucleotide binding]; other site 376686001824 metal binding site [ion binding]; metal-binding site 376686001825 UvrB/uvrC motif; Region: UVR; pfam02151 376686001826 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 376686001827 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 376686001828 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 376686001829 active site 376686001830 nucleophile elbow; other site 376686001831 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 376686001832 Cupin domain; Region: Cupin_2; cl09118 376686001833 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 376686001834 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 376686001835 dimer interface [polypeptide binding]; other site 376686001836 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 376686001837 active site 376686001838 Fe binding site [ion binding]; other site 376686001839 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 376686001840 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 376686001841 putative peptidase; Provisional; Region: PRK11649 376686001842 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 376686001843 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 376686001844 active site 376686001845 dimer interface [polypeptide binding]; other site 376686001846 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 376686001847 dimer interface [polypeptide binding]; other site 376686001848 active site 376686001849 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686001850 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 376686001851 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 376686001852 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 376686001853 DinB superfamily; Region: DinB_2; pfam12867 376686001854 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 376686001855 ArsC family; Region: ArsC; pfam03960 376686001856 catalytic residue [active] 376686001857 hypothetical protein; Provisional; Region: PRK11820 376686001858 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 376686001859 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 376686001860 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 376686001861 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 376686001862 catalytic site [active] 376686001863 G-X2-G-X-G-K; other site 376686001864 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 376686001865 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 376686001866 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 376686001867 active site 376686001868 (T/H)XGH motif; other site 376686001869 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 376686001870 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 376686001871 active site 376686001872 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 376686001873 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 376686001874 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 376686001875 active site 376686001876 metal binding site [ion binding]; metal-binding site 376686001877 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 376686001878 RNA 2'-phosphotransferase, Tpt1 / KptA family; Region: PTS_2-RNA; pfam01885 376686001879 Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Poa1p_like; cd02901 376686001880 ADP-ribose binding site [chemical binding]; other site 376686001881 Domain of unknown function (DUF1768); Region: DUF1768; cl01271 376686001882 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686001883 TIGR02452 family protein; Region: TIGR02452 376686001884 Uncharacterized protein conserved in bacteria (DUF2263); Region: DUF2263; pfam10021 376686001885 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 376686001886 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 376686001887 active site 376686001888 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 376686001889 nudix motif; other site 376686001890 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 376686001891 Transcriptional regulator [Transcription]; Region: LysR; COG0583 376686001892 Helix-turn-helix domains; Region: HTH; cl00088 376686001893 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 376686001894 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 376686001895 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 376686001896 dimer interface [polypeptide binding]; other site 376686001897 active site 376686001898 metal binding site [ion binding]; metal-binding site 376686001899 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 376686001900 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 376686001901 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686001902 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 376686001903 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686001904 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 376686001905 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686001906 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 376686001907 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 376686001908 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 376686001909 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 376686001910 dimer interface [polypeptide binding]; other site 376686001911 motif 1; other site 376686001912 active site 376686001913 motif 2; other site 376686001914 motif 3; other site 376686001915 Colicin V production protein; Region: Colicin_V; cl00567 376686001916 maltose phosphorylase; Provisional; Region: PRK13807 376686001917 Domain of unknown function (DUF303); Region: DUF303; pfam03629 376686001918 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 376686001919 Domain of unknown function (DUF303); Region: DUF303; pfam03629 376686001920 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 376686001921 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 376686001922 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 376686001923 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 376686001924 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 376686001925 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686001926 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 376686001927 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 376686001928 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 376686001929 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 376686001930 active site 376686001931 catalytic site [active] 376686001932 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 376686001933 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 376686001934 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 376686001935 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686001936 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686001937 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686001938 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686001939 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 376686001940 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 376686001941 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 376686001942 nudix motif; other site 376686001943 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 376686001944 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 376686001945 nudix motif; other site 376686001946 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 376686001947 GTP-binding protein LepA; Provisional; Region: PRK05433 376686001948 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 376686001949 G1 box; other site 376686001950 putative GEF interaction site [polypeptide binding]; other site 376686001951 GTP/Mg2+ binding site [chemical binding]; other site 376686001952 Switch I region; other site 376686001953 G2 box; other site 376686001954 G3 box; other site 376686001955 Switch II region; other site 376686001956 G4 box; other site 376686001957 G5 box; other site 376686001958 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 376686001959 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 376686001960 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 376686001961 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 376686001962 Predicted transcriptional regulator [Transcription]; Region: COG2378 376686001963 Helix-turn-helix domains; Region: HTH; cl00088 376686001964 WYL domain; Region: WYL; cl14852 376686001965 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 376686001966 DinB superfamily; Region: DinB_2; pfam12867 376686001967 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 376686001968 DinB superfamily; Region: DinB_2; pfam12867 376686001969 thiamine-monophosphate kinase; Region: thiL; TIGR01379 376686001970 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 376686001971 ATP binding site [chemical binding]; other site 376686001972 dimerization interface [polypeptide binding]; other site 376686001973 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 376686001974 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 376686001975 active site 376686001976 phosphorylation site [posttranslational modification] 376686001977 intermolecular recognition site; other site 376686001978 dimerization interface [polypeptide binding]; other site 376686001979 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686001980 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686001981 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 376686001982 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 376686001983 Histidine kinase; Region: HisKA_3; pfam07730 376686001984 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 376686001985 ATP binding site [chemical binding]; other site 376686001986 Mg2+ binding site [ion binding]; other site 376686001987 G-X-G motif; other site 376686001988 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 376686001989 active site 376686001990 phosphorylation site [posttranslational modification] 376686001991 intermolecular recognition site; other site 376686001992 dimerization interface [polypeptide binding]; other site 376686001993 LytTr DNA-binding domain; Region: LytTR; cl04498 376686001994 glycyl-tRNA synthetase; Provisional; Region: PRK04173 376686001995 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 376686001996 motif 1; other site 376686001997 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3'...; Region: GlyRS-like_core; cd00774 376686001998 active site 376686001999 motif 2; other site 376686002000 motif 3; other site 376686002001 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 376686002002 anticodon binding site; other site 376686002003 comF family protein; Region: comF; TIGR00201 376686002004 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 376686002005 active site 376686002006 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 376686002007 Ser-Thr-rich glycosyl-phosphatidyl-inositol-anchored membrane family; Region: GPI-anchored; pfam10342 376686002008 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 376686002009 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686002010 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 376686002011 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 376686002012 active site 376686002013 Riboflavin kinase; Region: Flavokinase; cl03312 376686002014 biotin synthase; Region: bioB; TIGR00433 376686002015 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 376686002016 FeS/SAM binding site; other site 376686002017 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 376686002018 JmjC domain, hydroxylase; Region: JmjC; cl15814 376686002019 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686002020 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 376686002021 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 376686002022 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 376686002023 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 376686002024 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 376686002025 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 376686002026 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 376686002027 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686002028 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686002029 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686002030 PA14 domain; Region: PA14; cl08459 376686002031 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686002032 RecX family; Region: RecX; cl00936 376686002033 Galactose binding lectin domain; Region: Gal_Lectin; pfam02140 376686002034 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686002035 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 376686002036 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 376686002037 active site 376686002038 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 376686002039 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 376686002040 inhibitor-cofactor binding pocket; inhibition site 376686002041 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686002042 catalytic residue [active] 376686002043 AAA domain; Region: AAA_26; pfam13500 376686002044 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686002045 TraB family; Region: TraB; cl12050 376686002046 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 376686002047 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 376686002048 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 376686002049 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686002050 catalytic residue [active] 376686002051 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 376686002052 NADH(P)-binding; Region: NAD_binding_10; pfam13460 376686002053 NAD binding site [chemical binding]; other site 376686002054 substrate binding site [chemical binding]; other site 376686002055 putative active site [active] 376686002056 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 376686002057 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 376686002058 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 376686002059 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 376686002060 alpha subunit interaction interface [polypeptide binding]; other site 376686002061 Walker A motif; other site 376686002062 ATP binding site [chemical binding]; other site 376686002063 Walker B motif; other site 376686002064 inhibitor binding site; inhibition site 376686002065 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 376686002066 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 376686002067 catalytic triad [active] 376686002068 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686002069 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686002070 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 376686002071 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 376686002072 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 376686002073 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 376686002074 glutaminase active site [active] 376686002075 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 376686002076 dimer interface [polypeptide binding]; other site 376686002077 active site 376686002078 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 376686002079 dimer interface [polypeptide binding]; other site 376686002080 active site 376686002081 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 376686002082 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 376686002083 Pantoate-beta-alanine ligase; Region: PanC; cd00560 376686002084 pantoate--beta-alanine ligase; Region: panC; TIGR00018 376686002085 active site 376686002086 ATP-binding site [chemical binding]; other site 376686002087 pantoate-binding site; other site 376686002088 HXXH motif; other site 376686002089 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 376686002090 tetramerization interface [polypeptide binding]; other site 376686002091 active site 376686002092 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 376686002093 DNA repair protein RadA; Provisional; Region: PRK11823 376686002094 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 376686002095 Walker A motif/ATP binding site; other site 376686002096 ATP binding site [chemical binding]; other site 376686002097 Walker B motif; other site 376686002098 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 376686002099 Transglycosylase; Region: Transgly; cl07896 376686002100 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 376686002101 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 376686002102 active site 376686002103 catalytic tetrad [active] 376686002104 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 376686002105 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686002106 ligand binding site [chemical binding]; other site 376686002107 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 376686002108 putative active site [active] 376686002109 putative DNA binding site [nucleotide binding]; other site 376686002110 putative phosphate binding site [ion binding]; other site 376686002111 putative catalytic site [active] 376686002112 metal binding site A [ion binding]; metal-binding site 376686002113 putative AP binding site [nucleotide binding]; other site 376686002114 putative metal binding site B [ion binding]; other site 376686002115 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 376686002116 putative acyl-acceptor binding pocket; other site 376686002117 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 376686002118 Protein of unknown function (DUF805); Region: DUF805; cl01224 376686002119 TM2 domain; Region: TM2; cl00984 376686002120 Protein of unknown function (DUF805); Region: DUF805; cl01224 376686002121 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 376686002122 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686002123 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 376686002124 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 376686002125 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686002126 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 376686002127 MgtE intracellular N domain; Region: MgtE_N; cl15244 376686002128 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 376686002129 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 376686002130 Divalent cation transporter; Region: MgtE; cl00786 376686002131 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686002132 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 376686002133 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 376686002134 binding surface 376686002135 TPR motif; other site 376686002136 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 376686002137 seryl-tRNA synthetase; Provisional; Region: PRK05431 376686002138 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 376686002139 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 376686002140 dimer interface [polypeptide binding]; other site 376686002141 active site 376686002142 motif 1; other site 376686002143 motif 2; other site 376686002144 motif 3; other site 376686002145 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 376686002146 binding surface 376686002147 TPR motif; other site 376686002148 TPR repeat; Region: TPR_11; pfam13414 376686002149 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 376686002150 binding surface 376686002151 TPR motif; other site 376686002152 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686002153 PrcB C-terminal; Region: PrcB_C; pfam14343 376686002154 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 376686002155 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 376686002156 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 376686002157 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 376686002158 Zinc finger domain containing protein (CDGSH-type) [Function unknown]; Region: COG3369 376686002159 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 376686002160 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 376686002161 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 376686002162 active site 376686002163 HIGH motif; other site 376686002164 KMSKS motif; other site 376686002165 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 376686002166 tRNA binding surface [nucleotide binding]; other site 376686002167 anticodon binding site; other site 376686002168 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 376686002169 dimer interface [polypeptide binding]; other site 376686002170 putative tRNA-binding site [nucleotide binding]; other site 376686002171 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 376686002172 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 376686002173 EamA-like transporter family; Region: EamA; cl01037 376686002174 EamA-like transporter family; Region: EamA; cl01037 376686002175 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 376686002176 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 376686002177 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 376686002178 motif II; other site 376686002179 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 376686002180 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 376686002181 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 376686002182 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686002183 ligand binding site [chemical binding]; other site 376686002184 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 376686002185 Ferritin-like domain; Region: Ferritin; pfam00210 376686002186 ferroxidase diiron center [ion binding]; other site 376686002187 Conserved hypothetical protein (DUF2461); Region: DUF2461; cl02374 376686002188 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 376686002189 dimer interface [polypeptide binding]; other site 376686002190 ssDNA binding site [nucleotide binding]; other site 376686002191 tetramer (dimer of dimers) interface [polypeptide binding]; other site 376686002192 Predicted amidohydrolase [General function prediction only]; Region: COG0388 376686002193 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 376686002194 putative active site [active] 376686002195 catalytic triad [active] 376686002196 putative dimer interface [polypeptide binding]; other site 376686002197 M28 Zn-peptidase Endoplasmic reticulum metallopeptidase 1; Region: M28_Fxna_like; cd03875 376686002198 metal binding site [ion binding]; metal-binding site 376686002199 Archaeal/vacuolar-type H+-ATPase subunit I [Energy production and conversion]; Region: NtpI; COG1269 376686002200 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 376686002201 active site residue [active] 376686002202 Transcriptional regulator [Transcription]; Region: LysR; COG0583 376686002203 Helix-turn-helix domains; Region: HTH; cl00088 376686002204 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 376686002205 dimerization interface [polypeptide binding]; other site 376686002206 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 376686002207 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686002208 Coenzyme A binding pocket [chemical binding]; other site 376686002209 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 376686002210 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 376686002211 putative NAD(P) binding site [chemical binding]; other site 376686002212 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 376686002213 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 376686002214 DNA binding site [nucleotide binding] 376686002215 active site 376686002216 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 376686002217 active site 376686002218 catalytic site [active] 376686002219 substrate binding site [chemical binding]; other site 376686002220 Protein of unknown function (DUF1006); Region: DUF1006; cl15826 376686002221 Nucleoside recognition; Region: Gate; cl00486 376686002222 Nucleoside recognition; Region: Gate; cl00486 376686002223 fumarate hydratase; Provisional; Region: PRK15389 376686002224 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 376686002225 Fumarase C-terminus; Region: Fumerase_C; cl00795 376686002226 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 376686002227 PAS domain; Region: PAS_9; pfam13426 376686002228 putative active site [active] 376686002229 heme pocket [chemical binding]; other site 376686002230 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 376686002231 active site 376686002232 DNA polymerase IV; Validated; Region: PRK02406 376686002233 DNA binding site [nucleotide binding] 376686002234 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 376686002235 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 376686002236 active site 376686002237 metal binding site [ion binding]; metal-binding site 376686002238 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 376686002239 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 376686002240 active site 376686002241 Zn binding site [ion binding]; other site 376686002242 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686002243 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 376686002244 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 376686002245 Transglycosylase; Region: Transgly; cl07896 376686002246 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 376686002247 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 376686002248 GldH lipoprotein; Region: GldH_lipo; cl11905 376686002249 PSP1 C-terminal conserved region; Region: PSP1; cl00770 376686002250 Domain of unknown function (DUF4304); Region: DUF4304; pfam14137 376686002251 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 376686002252 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4884 376686002253 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 376686002254 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 376686002255 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 376686002256 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 376686002257 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 376686002258 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 376686002259 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 376686002260 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 376686002261 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 376686002262 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 376686002263 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 376686002264 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 376686002265 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 376686002266 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 376686002267 Peptidase family U32; Region: Peptidase_U32; cl03113 376686002268 Transposase IS200 like; Region: Y1_Tnp; cl00848 376686002269 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 376686002270 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 376686002271 active site residue [active] 376686002272 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686002273 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 376686002274 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 376686002275 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 376686002276 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 376686002277 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 376686002278 non-specific DNA binding site [nucleotide binding]; other site 376686002279 salt bridge; other site 376686002280 sequence-specific DNA binding site [nucleotide binding]; other site 376686002281 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 376686002282 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 376686002283 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 376686002284 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 376686002285 Domain of unknown function (DUF955); Region: DUF955; cl01076 376686002286 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 376686002287 Disulphide isomerase; Region: Disulph_isomer; pfam06491 376686002288 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 376686002289 putative DNA binding site [nucleotide binding]; other site 376686002290 dimerization interface [polypeptide binding]; other site 376686002291 putative Zn2+ binding site [ion binding]; other site 376686002292 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686002293 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 376686002294 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686002295 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 376686002296 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 376686002297 N-terminal plug; other site 376686002298 ligand-binding site [chemical binding]; other site 376686002299 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686002300 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 376686002301 MerC mercury resistance protein; Region: MerC; cl03934 376686002302 Helix-turn-helix domains; Region: HTH; cl00088 376686002303 metal binding site 2 [ion binding]; metal-binding site 376686002304 putative DNA binding helix; other site 376686002305 metal binding site 1 [ion binding]; metal-binding site 376686002306 dimer interface [polypeptide binding]; other site 376686002307 structural Zn2+ binding site [ion binding]; other site 376686002308 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 376686002309 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 376686002310 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 376686002311 Ligand Binding Site [chemical binding]; other site 376686002312 Helix-turn-helix domains; Region: HTH; cl00088 376686002313 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 376686002314 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 376686002315 FeoA domain; Region: FeoA; cl00838 376686002316 enoyl-CoA hydratase; Provisional; Region: PRK07658 376686002317 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 376686002318 substrate binding site [chemical binding]; other site 376686002319 oxyanion hole (OAH) forming residues; other site 376686002320 trimer interface [polypeptide binding]; other site 376686002321 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686002322 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 376686002323 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 376686002324 dimer interface [polypeptide binding]; other site 376686002325 phosphorylation site [posttranslational modification] 376686002326 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 376686002327 ATP binding site [chemical binding]; other site 376686002328 Mg2+ binding site [ion binding]; other site 376686002329 G-X-G motif; other site 376686002330 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 376686002331 ferrochelatase; Reviewed; Region: hemH; PRK00035 376686002332 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 376686002333 C-terminal domain interface [polypeptide binding]; other site 376686002334 active site 376686002335 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 376686002336 active site 376686002337 N-terminal domain interface [polypeptide binding]; other site 376686002338 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686002339 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 376686002340 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686002341 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 376686002342 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686002343 NAD(P) binding pocket [chemical binding]; other site 376686002344 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 376686002345 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; pfam13366 376686002346 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 376686002347 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 376686002348 domain interfaces; other site 376686002349 active site 376686002350 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 376686002351 active site 376686002352 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 376686002353 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 376686002354 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 376686002355 substrate binding site [chemical binding]; other site 376686002356 active site 376686002357 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 376686002358 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 376686002359 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 376686002360 Transposase IS200 like; Region: Y1_Tnp; cl00848 376686002361 Domain of unknown function (DUF4421); Region: DUF4421; pfam14391 376686002362 Fructose-1.6-bisphosphate aldolase found in gram +/- bacteria; Region: FBP_aldolase_I_bact; cd00949 376686002363 putative active site [active] 376686002364 catalytic residue [active] 376686002365 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 376686002366 dimer interface [polypeptide binding]; other site 376686002367 allosteric magnesium binding site [ion binding]; other site 376686002368 active site 376686002369 aspartate-rich active site metal binding site; other site 376686002370 Schiff base residues; other site 376686002371 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 376686002372 Cytochrome c; Region: Cytochrom_C; cl11414 376686002373 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 376686002374 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 376686002375 active site 376686002376 Zn binding site [ion binding]; other site 376686002377 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 376686002378 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 376686002379 Cu(I) binding site [ion binding]; other site 376686002380 FeoA domain; Region: FeoA; cl00838 376686002381 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 376686002382 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 376686002383 G1 box; other site 376686002384 GTP/Mg2+ binding site [chemical binding]; other site 376686002385 Switch I region; other site 376686002386 G2 box; other site 376686002387 G3 box; other site 376686002388 Switch II region; other site 376686002389 G4 box; other site 376686002390 G5 box; other site 376686002391 Nucleoside recognition; Region: Gate; cl00486 376686002392 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 376686002393 Nucleoside recognition; Region: Gate; cl00486 376686002394 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 376686002395 Acyl ACP desaturase, ferritin-like diiron-binding domain; Region: Acyl_ACP_Desat; cd01050 376686002396 Fatty acid desaturase; Region: FA_desaturase_2; pfam03405 376686002397 homodimer interface [polypeptide binding]; other site 376686002398 putative substrate binding pocket [chemical binding]; other site 376686002399 diiron center [ion binding]; other site 376686002400 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 376686002401 putative acyl-acceptor binding pocket; other site 376686002402 Ribonuclease P; Region: Ribonuclease_P; cl00457 376686002403 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 376686002404 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 376686002405 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 376686002406 protein binding site [polypeptide binding]; other site 376686002407 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 376686002408 Catalytic dyad [active] 376686002409 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686002410 ligand binding site [chemical binding]; other site 376686002411 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686002412 ligand binding site [chemical binding]; other site 376686002413 Protein of unknown function (DUF1579); Region: DUF1579; pfam07617 376686002414 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 376686002415 N-acetyl-D-glucosamine binding site [chemical binding]; other site 376686002416 catalytic residue [active] 376686002417 invasion associated secreted endopeptidase; Provisional; Region: PRK13914 376686002418 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 376686002419 putative peptidoglycan binding site; other site 376686002420 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 376686002421 putative peptidoglycan binding site; other site 376686002422 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 376686002423 putative peptidoglycan binding site; other site 376686002424 Phosphoglycerate kinase; Region: PGK; pfam00162 376686002425 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 376686002426 substrate binding site [chemical binding]; other site 376686002427 hinge regions; other site 376686002428 ADP binding site [chemical binding]; other site 376686002429 catalytic site [active] 376686002430 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 376686002431 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686002432 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686002433 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686002434 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686002435 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686002436 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686002437 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686002438 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686002439 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686002440 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 376686002441 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686002442 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 376686002443 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686002444 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 376686002445 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 376686002446 recombinase A; Provisional; Region: recA; PRK09354 376686002447 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 376686002448 hexamer interface [polypeptide binding]; other site 376686002449 Walker A motif; other site 376686002450 ATP binding site [chemical binding]; other site 376686002451 Walker B motif; other site 376686002452 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 376686002453 putative acyl-acceptor binding pocket; other site 376686002454 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 376686002455 active site 376686002456 HIGH motif; other site 376686002457 dimer interface [polypeptide binding]; other site 376686002458 KMSKS motif; other site 376686002459 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686002460 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 376686002461 active site 376686002462 phosphorylation site [posttranslational modification] 376686002463 intermolecular recognition site; other site 376686002464 dimerization interface [polypeptide binding]; other site 376686002465 LytTr DNA-binding domain; Region: LytTR; cl04498 376686002466 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 376686002467 Histidine kinase; Region: His_kinase; pfam06580 376686002468 OpgC protein; Region: OpgC_C; cl00792 376686002469 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 376686002470 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 376686002471 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 376686002472 Sporulation related domain; Region: SPOR; cl10051 376686002473 PIF1-like helicase; Region: PIF1; pfam05970 376686002474 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686002475 Helicase; Region: Herpes_Helicase; pfam02689 376686002476 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 376686002477 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 376686002478 Methyltransferase domain; Region: Methyltransf_31; pfam13847 376686002479 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 376686002480 S-adenosylmethionine binding site [chemical binding]; other site 376686002481 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 376686002482 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686002483 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 376686002484 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 376686002485 phosphodiesterase; Provisional; Region: PRK12704 376686002486 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 376686002487 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 376686002488 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 376686002489 HIGH motif; other site 376686002490 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 376686002491 active site 376686002492 KMSKS motif; other site 376686002493 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 376686002494 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_4; cd03407 376686002495 YtxH-like protein; Region: YtxH; cl02079 376686002496 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 376686002497 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 376686002498 active site 376686002499 HIGH motif; other site 376686002500 nucleotide binding site [chemical binding]; other site 376686002501 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 376686002502 active site 376686002503 KMSKS motif; other site 376686002504 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 376686002505 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 376686002506 active site 376686002507 LysE type translocator; Region: LysE; cl00565 376686002508 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 376686002509 ribonuclease R; Region: RNase_R; TIGR02063 376686002510 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 376686002511 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 376686002512 RNB domain; Region: RNB; pfam00773 376686002513 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 376686002514 RNA binding site [nucleotide binding]; other site 376686002515 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 376686002516 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 376686002517 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 376686002518 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 376686002519 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 376686002520 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 376686002521 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 376686002522 RNA binding site [nucleotide binding]; other site 376686002523 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 376686002524 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686002525 GH3 auxin-responsive promoter; Region: GH3; cl04006 376686002526 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 376686002527 MatE; Region: MatE; cl10513 376686002528 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686002529 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 376686002530 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686002531 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 376686002532 putative ADP-binding pocket [chemical binding]; other site 376686002533 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 376686002534 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 376686002535 NAD binding site [chemical binding]; other site 376686002536 putative substrate binding site 2 [chemical binding]; other site 376686002537 putative substrate binding site 1 [chemical binding]; other site 376686002538 active site 376686002539 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686002540 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 376686002541 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 376686002542 active site 376686002543 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 376686002544 homodimer interface [polypeptide binding]; other site 376686002545 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 376686002546 AMP-binding enzyme; Region: AMP-binding; cl15778 376686002547 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 376686002548 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 376686002549 ATP-grasp domain; Region: ATP-grasp_4; cl03087 376686002550 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 376686002551 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 376686002552 active site 376686002553 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 376686002554 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 376686002555 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 376686002556 putative active site [active] 376686002557 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 376686002558 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 376686002559 FAD binding pocket [chemical binding]; other site 376686002560 FAD binding motif [chemical binding]; other site 376686002561 phosphate binding motif [ion binding]; other site 376686002562 beta-alpha-beta structure motif; other site 376686002563 NAD(p) ribose binding residues [chemical binding]; other site 376686002564 NAD binding pocket [chemical binding]; other site 376686002565 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 376686002566 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 376686002567 catalytic loop [active] 376686002568 iron binding site [ion binding]; other site 376686002569 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 376686002570 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 376686002571 Walker A/P-loop; other site 376686002572 ATP binding site [chemical binding]; other site 376686002573 Q-loop/lid; other site 376686002574 ABC transporter signature motif; other site 376686002575 Walker B; other site 376686002576 D-loop; other site 376686002577 H-loop/switch region; other site 376686002578 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686002579 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 376686002580 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 376686002581 ATP synthase A chain; Region: ATP-synt_A; cl00413 376686002582 Plant ATP synthase F0; Region: YMF19; cl07975 376686002583 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 376686002584 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 376686002585 Plant ATP synthase F0; Region: YMF19; cl07975 376686002586 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 376686002587 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 376686002588 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 376686002589 beta subunit interaction interface [polypeptide binding]; other site 376686002590 Walker A motif; other site 376686002591 ATP binding site [chemical binding]; other site 376686002592 Walker B motif; other site 376686002593 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 376686002594 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 376686002595 ATP synthase; Region: ATP-synt; cl00365 376686002596 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686002597 Coenzyme A binding pocket [chemical binding]; other site 376686002598 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 376686002599 MatE; Region: MatE; cl10513 376686002600 MatE; Region: MatE; cl10513 376686002601 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 376686002602 trimer interface [polypeptide binding]; other site 376686002603 active site 376686002604 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 376686002605 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 376686002606 active site 376686002607 Substrate binding site; other site 376686002608 Mg++ binding site; other site 376686002609 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 376686002610 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 376686002611 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 376686002612 binding surface 376686002613 TPR motif; other site 376686002614 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 376686002615 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 376686002616 FOG: CBS domain [General function prediction only]; Region: COG0517 376686002617 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 376686002618 Ribosome-binding factor A; Region: RBFA; cl00542 376686002619 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 376686002620 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 376686002621 MatE; Region: MatE; cl10513 376686002622 MatE; Region: MatE; cl10513 376686002623 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 376686002624 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 376686002625 FMN binding site [chemical binding]; other site 376686002626 active site 376686002627 catalytic residues [active] 376686002628 substrate binding site [chemical binding]; other site 376686002629 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 376686002630 AMP-binding enzyme; Region: AMP-binding; cl15778 376686002631 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 376686002632 active site 376686002633 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 376686002634 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686002635 Predicted exporter [General function prediction only]; Region: COG4258 376686002636 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 376686002637 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 376686002638 putative acyl-acceptor binding pocket; other site 376686002639 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 376686002640 Ligand binding site; other site 376686002641 Putative Catalytic site; other site 376686002642 DXD motif; other site 376686002643 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 376686002644 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 376686002645 active site 2 [active] 376686002646 dimer interface [polypeptide binding]; other site 376686002647 active site 1 [active] 376686002648 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 376686002649 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 376686002650 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 376686002651 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 376686002652 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 376686002653 NodB motif; other site 376686002654 active site 376686002655 catalytic site [active] 376686002656 metal binding site [ion binding]; metal-binding site 376686002657 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 376686002658 active site 376686002659 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 376686002660 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 376686002661 dimer interface [polypeptide binding]; other site 376686002662 active site 376686002663 Phosphopantetheine attachment site; Region: PP-binding; cl09936 376686002664 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 376686002665 active site 376686002666 Virulence protein [General function prediction only]; Region: COG3943 376686002667 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 376686002668 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 376686002669 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 376686002670 dimer interface [polypeptide binding]; other site 376686002671 active site 376686002672 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 376686002673 active site 376686002674 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 376686002675 ABC-2 type transporter; Region: ABC2_membrane; cl11417 376686002676 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 376686002677 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686002678 Walker A/P-loop; other site 376686002679 ATP binding site [chemical binding]; other site 376686002680 Q-loop/lid; other site 376686002681 ABC transporter signature motif; other site 376686002682 Walker B; other site 376686002683 D-loop; other site 376686002684 H-loop/switch region; other site 376686002685 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 376686002686 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 376686002687 active site 1 [active] 376686002688 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 376686002689 'initiating' condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are characterized by the...; Region: init_cond_enzymes; cd00827 376686002690 dimer interface [polypeptide binding]; other site 376686002691 active site 376686002692 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 376686002693 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 376686002694 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 376686002695 putative acyl-acceptor binding pocket; other site 376686002696 Phosphopantetheine attachment site; Region: PP-binding; cl09936 376686002697 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 376686002698 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 376686002699 dimer interface [polypeptide binding]; other site 376686002700 active site 376686002701 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 376686002702 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686002703 NAD(P) binding site [chemical binding]; other site 376686002704 active site 376686002705 KWG Leptospira; Region: KWG; pfam07656 376686002706 KWG Leptospira; Region: KWG; pfam07656 376686002707 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 376686002708 active sites [active] 376686002709 tetramer interface [polypeptide binding]; other site 376686002710 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 376686002711 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686002712 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 376686002713 Sodium:solute symporter family; Region: SSF; cl00456 376686002714 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 376686002715 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 376686002716 dimer interface [polypeptide binding]; other site 376686002717 active site 376686002718 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 376686002719 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 376686002720 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 376686002721 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 376686002722 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 376686002723 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 376686002724 active site 376686002725 catalytic residues [active] 376686002726 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 376686002727 DNA-binding site [nucleotide binding]; DNA binding site 376686002728 Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability; Region: PBP1_FucR_like; cd06276 376686002729 putative dimerization interface [polypeptide binding]; other site 376686002730 putative ligand binding site [chemical binding]; other site 376686002731 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 376686002732 nudix motif; other site 376686002733 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 376686002734 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 376686002735 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 376686002736 ribulokinase; Provisional; Region: PRK04123 376686002737 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 376686002738 putative N- and C-terminal domain interface [polypeptide binding]; other site 376686002739 putative active site [active] 376686002740 putative MgATP binding site [chemical binding]; other site 376686002741 catalytic site [active] 376686002742 metal binding site [ion binding]; metal-binding site 376686002743 carbohydrate binding site [chemical binding]; other site 376686002744 homodimer interface [polypeptide binding]; other site 376686002745 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 376686002746 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 376686002747 intersubunit interface [polypeptide binding]; other site 376686002748 active site 376686002749 Zn2+ binding site [ion binding]; other site 376686002750 L-arabinose isomerase; Provisional; Region: PRK02929 376686002751 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 376686002752 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 376686002753 trimer interface [polypeptide binding]; other site 376686002754 putative substrate binding site [chemical binding]; other site 376686002755 putative metal binding site [ion binding]; other site 376686002756 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 376686002757 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 376686002758 active site 376686002759 catalytic residues [active] 376686002760 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686002761 OsmC-like protein; Region: OsmC; cl00767 376686002762 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 376686002763 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 376686002764 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 376686002765 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 376686002766 active site 376686002767 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 376686002768 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 376686002769 5S rRNA interface [nucleotide binding]; other site 376686002770 CTC domain interface [polypeptide binding]; other site 376686002771 L16 interface [polypeptide binding]; other site 376686002772 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 376686002773 putative active site [active] 376686002774 catalytic residue [active] 376686002775 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 376686002776 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 376686002777 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 376686002778 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 376686002779 active site 376686002780 amidophosphoribosyltransferase; Provisional; Region: PRK09123 376686002781 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 376686002782 Ribokinase-like subgroup C. Found only in bacteria, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_C; cd01946 376686002783 substrate binding site [chemical binding]; other site 376686002784 ATP binding site [chemical binding]; other site 376686002785 RNA polymerase sigma factor SigW; Provisional; Region: PRK09641 376686002786 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686002787 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 376686002788 DNA binding residues [nucleotide binding] 376686002789 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 376686002790 RNA/DNA hybrid binding site [nucleotide binding]; other site 376686002791 active site 376686002792 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 376686002793 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 376686002794 active site 376686002795 substrate binding site [chemical binding]; other site 376686002796 cosubstrate binding site; other site 376686002797 catalytic site [active] 376686002798 Phosphopantetheine attachment site; Region: PP-binding; cl09936 376686002799 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 376686002800 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 376686002801 dimer interface [polypeptide binding]; other site 376686002802 active site 376686002803 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 376686002804 dimerization interface [polypeptide binding]; other site 376686002805 active site 376686002806 metal binding site [ion binding]; metal-binding site 376686002807 pyruvate kinase; Provisional; Region: PRK05826 376686002808 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 376686002809 domain interfaces; other site 376686002810 active site 376686002811 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 376686002812 Sulfatase; Region: Sulfatase; cl10460 376686002813 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 376686002814 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; cl12088 376686002815 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 376686002816 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686002817 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 376686002818 Surface antigen; Region: Bac_surface_Ag; cl03097 376686002819 CAAX protease self-immunity; Region: Abi; cl00558 376686002820 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686002821 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686002822 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; cl00298 376686002823 active site 376686002824 Domain of unknown function (DUF4297); Region: DUF4297; pfam14130 376686002825 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 376686002826 Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its homologs; Region: GIY-YIG_SLX1_like; cd10449 376686002827 GIY-YIG motif/motif A; other site 376686002828 putative active site [active] 376686002829 putative metal binding site [ion binding]; other site 376686002830 RIP metalloprotease RseP; Region: TIGR00054 376686002831 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 376686002832 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 376686002833 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 376686002834 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 376686002835 putative substrate binding region [chemical binding]; other site 376686002836 class IIb bacteriocin, lactobin A/cerein 7B family; Region: bact_IIb_cerein; TIGR03949 376686002837 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 376686002838 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 376686002839 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 376686002840 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 376686002841 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39B; cd02418 376686002842 putative active site [active] 376686002843 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 376686002844 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686002845 Walker A/P-loop; other site 376686002846 ATP binding site [chemical binding]; other site 376686002847 Q-loop/lid; other site 376686002848 ABC transporter signature motif; other site 376686002849 Walker B; other site 376686002850 D-loop; other site 376686002851 H-loop/switch region; other site 376686002852 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 376686002853 active site 376686002854 FMN binding site [chemical binding]; other site 376686002855 substrate binding site [chemical binding]; other site 376686002856 homotetramer interface [polypeptide binding]; other site 376686002857 catalytic residue [active] 376686002858 putative oxidoreductase; Provisional; Region: PRK11579 376686002859 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686002860 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 376686002861 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 376686002862 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 376686002863 putative substrate translocation pore; other site 376686002864 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686002865 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 376686002866 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 376686002867 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 376686002868 HflX GTPase family; Region: HflX; cd01878 376686002869 G1 box; other site 376686002870 GTP/Mg2+ binding site [chemical binding]; other site 376686002871 Switch I region; other site 376686002872 G2 box; other site 376686002873 G3 box; other site 376686002874 Switch II region; other site 376686002875 G4 box; other site 376686002876 G5 box; other site 376686002877 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 376686002878 Protein of unknown function (DUF2480); Region: DUF2480; pfam10652 376686002879 Domain of unknown function DUF59; Region: DUF59; cl00941 376686002880 Fe-S metabolism associated domain; Region: SufE; cl00951 376686002881 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 376686002882 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 376686002883 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686002884 catalytic residue [active] 376686002885 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 376686002886 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 376686002887 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 376686002888 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 376686002889 FeS assembly ATPase SufC; Region: sufC; TIGR01978 376686002890 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 376686002891 Walker A/P-loop; other site 376686002892 ATP binding site [chemical binding]; other site 376686002893 Q-loop/lid; other site 376686002894 ABC transporter signature motif; other site 376686002895 Walker B; other site 376686002896 D-loop; other site 376686002897 H-loop/switch region; other site 376686002898 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 376686002899 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 376686002900 putative ABC transporter; Region: ycf24; CHL00085 376686002901 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 376686002902 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 376686002903 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 376686002904 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 376686002905 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 376686002906 Leucine-rich repeats; other site 376686002907 Substrate binding site [chemical binding]; other site 376686002908 E3 ubiquitin-protein ligase SspH2; Provisional; Region: PRK15387 376686002909 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 376686002910 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686002911 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 376686002912 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 376686002913 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 376686002914 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 376686002915 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 376686002916 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 376686002917 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 376686002918 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 376686002919 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 376686002920 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686002921 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 376686002922 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 376686002923 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 376686002924 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 376686002925 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686002926 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 376686002927 Domain of unknown function (DUF3496); Region: DUF3496; pfam12001 376686002928 Peptidase S8 family domain in Subtilisin_Novo-like proteins; Region: Peptidases_S8_Subtilisin_Novo-like; cd07483 376686002929 active site 376686002930 catalytic triad [active] 376686002931 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 376686002932 Zn binding site [ion binding]; other site 376686002933 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 376686002934 NlpC/P60 family; Region: NLPC_P60; cl11438 376686002935 Predicted membrane protein [Function unknown]; Region: COG2311 376686002936 Protein of unknown function (DUF418); Region: DUF418; cl12135 376686002937 Predicted membrane protein [Function unknown]; Region: COG2311 376686002938 Protein of unknown function (DUF418); Region: DUF418; cl12135 376686002939 L-threonine dehydrogenase, extended (e) SDRs; Region: TDH_SDR_e; cd05272 376686002940 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 376686002941 NAD binding site [chemical binding]; other site 376686002942 homodimer interface [polypeptide binding]; other site 376686002943 active site 376686002944 putative substrate binding site [chemical binding]; other site 376686002945 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 376686002946 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 376686002947 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 376686002948 ATP binding site [chemical binding]; other site 376686002949 putative Mg++ binding site [ion binding]; other site 376686002950 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 376686002951 nucleotide binding region [chemical binding]; other site 376686002952 ATP-binding site [chemical binding]; other site 376686002953 TRCF domain; Region: TRCF; cl04088 376686002954 Alpha amylase catalytic domain found in archaeal and bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_AmyA; cd11313 376686002955 active site 376686002956 catalytic site [active] 376686002957 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 376686002958 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 376686002959 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 376686002960 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686002961 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 376686002962 Alpha amylase catalytic domain found in archaeal and bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_AmyA; cd11313 376686002963 active site 376686002964 catalytic site [active] 376686002965 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 376686002966 SusE outer membrane protein; Region: SusE; pfam14292 376686002967 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686002968 Secretin and TonB N terminus short domain; Region: STN; cl06624 376686002969 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686002970 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686002971 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 376686002972 fec operon regulator FecR; Reviewed; Region: PRK09774 376686002973 FecR protein; Region: FecR; pfam04773 376686002974 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 376686002975 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686002976 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 376686002977 DNA binding residues [nucleotide binding] 376686002978 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 376686002979 Restriction endonuclease; Region: Mrr_cat; cl00516 376686002980 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 376686002981 dimer interface [polypeptide binding]; other site 376686002982 catalytic triad [active] 376686002983 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 376686002984 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 376686002985 putative catalytic site [active] 376686002986 putative metal binding site [ion binding]; other site 376686002987 putative phosphate binding site [ion binding]; other site 376686002988 Cupin domain; Region: Cupin_2; cl09118 376686002989 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 376686002990 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 376686002991 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 376686002992 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 376686002993 tetrameric interface [polypeptide binding]; other site 376686002994 NAD binding site [chemical binding]; other site 376686002995 catalytic residues [active] 376686002996 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 376686002997 LemA family; Region: LemA; cl00742 376686002998 Pectate lyase; Region: Pec_lyase_C; cl01593 376686002999 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686003000 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 376686003001 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 376686003002 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 376686003003 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 376686003004 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 376686003005 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 376686003006 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 376686003007 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 376686003008 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 376686003009 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 376686003010 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 376686003011 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 376686003012 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 376686003013 NADH dehydrogenase; Region: NADHdh; cl00469 376686003014 NADH-quinone oxidoreductase, chain G; Region: NuoG; TIGR01973 376686003015 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 376686003016 catalytic loop [active] 376686003017 iron binding site [ion binding]; other site 376686003018 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 376686003019 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 376686003020 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 376686003021 SLBB domain; Region: SLBB; pfam10531 376686003022 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 376686003023 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 376686003024 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 376686003025 putative dimer interface [polypeptide binding]; other site 376686003026 [2Fe-2S] cluster binding site [ion binding]; other site 376686003027 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 376686003028 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 376686003029 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 376686003030 NADH dehydrogenase subunit B; Provisional; Region: PRK14820 376686003031 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 376686003032 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 376686003033 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 376686003034 DNA-binding site [nucleotide binding]; DNA binding site 376686003035 RNA-binding motif; other site 376686003036 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 376686003037 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 376686003038 dimer interface [polypeptide binding]; other site 376686003039 anticodon binding site; other site 376686003040 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 376686003041 homodimer interface [polypeptide binding]; other site 376686003042 motif 1; other site 376686003043 active site 376686003044 motif 2; other site 376686003045 GAD domain; Region: GAD; pfam02938 376686003046 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 376686003047 motif 3; other site 376686003048 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 376686003049 catalytic residues [active] 376686003050 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 376686003051 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 376686003052 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 376686003053 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 376686003054 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 376686003055 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 376686003056 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 376686003057 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 376686003058 E3 interaction surface; other site 376686003059 lipoyl attachment site [posttranslational modification]; other site 376686003060 e3 binding domain; Region: E3_binding; pfam02817 376686003061 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 376686003062 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 376686003063 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 376686003064 TPP-binding site [chemical binding]; other site 376686003065 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 376686003066 Transcriptional regulators [Transcription]; Region: PurR; COG1609 376686003067 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 376686003068 DNA binding site [nucleotide binding] 376686003069 domain linker motif; other site 376686003070 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 376686003071 dimerization interface [polypeptide binding]; other site 376686003072 ligand binding site [chemical binding]; other site 376686003073 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686003074 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686003075 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 376686003076 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 376686003077 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 376686003078 Major Facilitator Superfamily; Region: MFS_1; pfam07690 376686003079 putative substrate translocation pore; other site 376686003080 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 376686003081 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 376686003082 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 376686003083 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 376686003084 substrate binding pocket [chemical binding]; other site 376686003085 chain length determination region; other site 376686003086 substrate-Mg2+ binding site; other site 376686003087 catalytic residues [active] 376686003088 aspartate-rich region 1; other site 376686003089 active site lid residues [active] 376686003090 aspartate-rich region 2; other site 376686003091 YceI-like domain; Region: YceI; cl01001 376686003092 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 376686003093 Helix-turn-helix domains; Region: HTH; cl00088 376686003094 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 376686003095 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686003096 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 376686003097 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 376686003098 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 376686003099 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686003100 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686003101 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686003102 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 376686003103 catalytic motif [active] 376686003104 Catalytic residue [active] 376686003105 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686003106 CHAT domain; Region: CHAT; pfam12770 376686003107 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 376686003108 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 376686003109 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 376686003110 DNA binding residues [nucleotide binding] 376686003111 Tetratricopeptide repeat; Region: TPR_16; pfam13432 376686003112 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 376686003113 C-terminal peptidase (prc); Region: prc; TIGR00225 376686003114 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 376686003115 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 376686003116 Active site serine [active] 376686003117 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 376686003118 active site 376686003119 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 376686003120 putative acyl-acceptor binding pocket; other site 376686003121 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 376686003122 active site 376686003123 homodimer interface [polypeptide binding]; other site 376686003124 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 376686003125 Major Facilitator Superfamily; Region: MFS_1; pfam07690 376686003126 putative substrate translocation pore; other site 376686003127 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 376686003128 Helix-turn-helix domains; Region: HTH; cl00088 376686003129 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 376686003130 dimerization interface [polypeptide binding]; other site 376686003131 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 376686003132 non-specific DNA binding site [nucleotide binding]; other site 376686003133 salt bridge; other site 376686003134 sequence-specific DNA binding site [nucleotide binding]; other site 376686003135 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 376686003136 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686003137 Coenzyme A binding pocket [chemical binding]; other site 376686003138 Predicted amidohydrolase [General function prediction only]; Region: COG0388 376686003139 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_7; cd07585 376686003140 putative active site [active] 376686003141 catalytic triad [active] 376686003142 putative dimer interface [polypeptide binding]; other site 376686003143 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686003144 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686003145 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_1; cd01832 376686003146 active site 376686003147 catalytic triad [active] 376686003148 oxyanion hole [active] 376686003149 Protein of unknown function (DUF3050); Region: DUF3050; pfam11251 376686003150 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 376686003151 acyl-coenzyme A oxidase; Region: PLN02526 376686003152 active site 376686003153 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686003154 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686003155 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 376686003156 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 376686003157 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39B; cd02418 376686003158 putative active site [active] 376686003159 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 376686003160 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686003161 Walker A/P-loop; other site 376686003162 ATP binding site [chemical binding]; other site 376686003163 Q-loop/lid; other site 376686003164 ABC transporter signature motif; other site 376686003165 Walker B; other site 376686003166 D-loop; other site 376686003167 H-loop/switch region; other site 376686003168 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 376686003169 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 376686003170 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 376686003171 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 376686003172 S-adenosylmethionine binding site [chemical binding]; other site 376686003173 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 376686003174 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 376686003175 RimM N-terminal domain; Region: RimM; pfam01782 376686003176 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 376686003177 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 376686003178 RNA/DNA binding site [nucleotide binding]; other site 376686003179 RRM dimerization site [polypeptide binding]; other site 376686003180 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 376686003181 tartrate dehydrogenase; Provisional; Region: PRK08194 376686003182 2-isopropylmalate synthase; Validated; Region: PRK00915 376686003183 Leptospira interrogans citramalate synthase (CMS) and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_CMS; cd07945 376686003184 active site 376686003185 catalytic residues [active] 376686003186 metal binding site [ion binding]; metal-binding site 376686003187 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 376686003188 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 376686003189 substrate binding site [chemical binding]; other site 376686003190 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 376686003191 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 376686003192 substrate binding site [chemical binding]; other site 376686003193 ligand binding site [chemical binding]; other site 376686003194 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686003195 short chain dehydrogenase; Validated; Region: PRK06182 376686003196 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 376686003197 NADP binding site [chemical binding]; other site 376686003198 active site 376686003199 steroid binding site; other site 376686003200 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 376686003201 active site 376686003202 substrate binding site [chemical binding]; other site 376686003203 catalytic site [active] 376686003204 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 376686003205 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 376686003206 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 376686003207 generic binding surface I; other site 376686003208 generic binding surface II; other site 376686003209 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 376686003210 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686003211 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 376686003212 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 376686003213 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 376686003214 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686003215 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 376686003216 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 376686003217 N-terminal plug; other site 376686003218 ligand-binding site [chemical binding]; other site 376686003219 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 376686003220 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 376686003221 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 376686003222 active site 376686003223 putative bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase; Provisional; Region: PRK11930 376686003224 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 376686003225 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 376686003226 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 376686003227 active site 376686003228 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 376686003229 dimer interface [polypeptide binding]; other site 376686003230 substrate binding site [chemical binding]; other site 376686003231 catalytic residues [active] 376686003232 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 376686003233 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 376686003234 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 376686003235 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686003236 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 376686003237 Domain of unknown function (DUF4284); Region: DUF4284; pfam14112 376686003238 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 376686003239 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 376686003240 NifU-like domain; Region: NifU; cl00484 376686003241 Domain of unknown function DUF59; Region: DUF59; cl00941 376686003242 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 376686003243 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 376686003244 Walker A motif; other site 376686003245 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 376686003246 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 376686003247 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 376686003248 FtsX-like permease family; Region: FtsX; cl15850 376686003249 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 376686003250 FtsX-like permease family; Region: FtsX; cl15850 376686003251 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 376686003252 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 376686003253 Walker A/P-loop; other site 376686003254 ATP binding site [chemical binding]; other site 376686003255 Q-loop/lid; other site 376686003256 ABC transporter signature motif; other site 376686003257 Walker B; other site 376686003258 D-loop; other site 376686003259 H-loop/switch region; other site 376686003260 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686003261 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 376686003262 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 376686003263 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 376686003264 active site 376686003265 phosphorylation site [posttranslational modification] 376686003266 intermolecular recognition site; other site 376686003267 dimerization interface [polypeptide binding]; other site 376686003268 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 376686003269 Walker A motif; other site 376686003270 ATP binding site [chemical binding]; other site 376686003271 Walker B motif; other site 376686003272 arginine finger; other site 376686003273 Helix-turn-helix domains; Region: HTH; cl00088 376686003274 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 376686003275 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 376686003276 ATP binding site [chemical binding]; other site 376686003277 Mg2+ binding site [ion binding]; other site 376686003278 G-X-G motif; other site 376686003279 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 376686003280 DNA binding site [nucleotide binding] 376686003281 active site 376686003282 lysyl-tRNA synthetase; Provisional; Region: lysS; PRK02983 376686003283 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 376686003284 S-adenosylmethionine binding site [chemical binding]; other site 376686003285 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 376686003286 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 376686003287 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; cl00250 376686003288 30S subunit binding site; other site 376686003289 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 376686003290 AsmA-like C-terminal region; Region: AsmA_2; cl15864 376686003291 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 376686003292 catalytic residues [active] 376686003293 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686003294 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 376686003295 dimer interface [polypeptide binding]; other site 376686003296 phosphorylation site [posttranslational modification] 376686003297 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 376686003298 ATP binding site [chemical binding]; other site 376686003299 Mg2+ binding site [ion binding]; other site 376686003300 G-X-G motif; other site 376686003301 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686003302 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 376686003303 active site 376686003304 phosphorylation site [posttranslational modification] 376686003305 intermolecular recognition site; other site 376686003306 dimerization interface [polypeptide binding]; other site 376686003307 LytTr DNA-binding domain; Region: LytTR; cl04498 376686003308 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 376686003309 Zn binding site [ion binding]; other site 376686003310 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 376686003311 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 376686003312 Acyltransferase family; Region: Acyl_transf_3; pfam01757 376686003313 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 376686003314 active site 376686003315 catalytic triad [active] 376686003316 oxyanion hole [active] 376686003317 Cupin domain; Region: Cupin_2; cl09118 376686003318 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 376686003319 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686003320 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686003321 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 376686003322 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 376686003323 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 376686003324 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 376686003325 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 376686003326 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 376686003327 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 376686003328 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 376686003329 motif II; other site 376686003330 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 376686003331 non-specific DNA binding site [nucleotide binding]; other site 376686003332 salt bridge; other site 376686003333 sequence-specific DNA binding site [nucleotide binding]; other site 376686003334 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 376686003335 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 376686003336 metal binding site [ion binding]; metal-binding site 376686003337 putative dimer interface [polypeptide binding]; other site 376686003338 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 376686003339 Helix-turn-helix domains; Region: HTH; cl00088 376686003340 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 376686003341 Gram-negative bacterial tonB protein; Region: TonB; cl10048 376686003342 lysine-ketoglutarate reductase/saccharopine dehydrogenase; Region: PLN02819 376686003343 Protein of unknown function (DUF423); Region: DUF423; cl01008 376686003344 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 376686003345 active site 376686003346 substrate-binding site [chemical binding]; other site 376686003347 metal-binding site [ion binding] 376686003348 ATP binding site [chemical binding]; other site 376686003349 Phytase; Region: Phytase; pfam02333 376686003350 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686003351 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 376686003352 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 376686003353 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 376686003354 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 376686003355 Protein of unknown function (DUF419); Region: DUF419; cl15265 376686003356 Domain of unknown function (DUF4260); Region: DUF4260; pfam14079 376686003357 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686003358 Coenzyme A binding pocket [chemical binding]; other site 376686003359 Putative cyclase; Region: Cyclase; cl00814 376686003360 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; pfam13366 376686003361 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 376686003362 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 376686003363 FeS/SAM binding site; other site 376686003364 HemN C-terminal domain; Region: HemN_C; pfam06969 376686003365 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 376686003366 active site 376686003367 putative DNA-binding cleft [nucleotide binding]; other site 376686003368 dimer interface [polypeptide binding]; other site 376686003369 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 376686003370 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 376686003371 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_e; cd04192 376686003372 Protein of unknown function (DUF456); Region: DUF456; cl01069 376686003373 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 376686003374 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 376686003375 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 376686003376 RNA binding surface [nucleotide binding]; other site 376686003377 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 376686003378 active site 376686003379 UbiA prenyltransferase family; Region: UbiA; cl00337 376686003380 Protein of unknown function (DUF502); Region: DUF502; cl01107 376686003381 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 376686003382 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 376686003383 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 376686003384 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 376686003385 TspO/MBR family; Region: TspO_MBR; cl01379 376686003386 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 376686003387 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 376686003388 ligand binding site [chemical binding]; other site 376686003389 flexible hinge region; other site 376686003390 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 376686003391 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 376686003392 motif II; other site 376686003393 flavoprotein, HI0933 family; Region: TIGR00275 376686003394 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686003395 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 376686003396 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 376686003397 active site 376686003398 catalytic site [active] 376686003399 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 376686003400 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 376686003401 active site 376686003402 catalytic site [active] 376686003403 alpha-amylase; Reviewed; Region: malS; PRK09505 376686003404 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 376686003405 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_3; cd11340 376686003406 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 376686003407 Ca binding site [ion binding]; other site 376686003408 active site 376686003409 homodimer interface [polypeptide binding]; other site 376686003410 catalytic site [active] 376686003411 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 376686003412 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 376686003413 maltose phosphorylase; Provisional; Region: PRK13807 376686003414 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 376686003415 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 376686003416 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 376686003417 beta-phosphoglucomutase; Region: bPGM; TIGR01990 376686003418 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 376686003419 motif II; other site 376686003420 GPH family sucrose/H+ symporter; Region: GPH_sucrose; TIGR01301 376686003421 GPH family sucrose/H+ symporter; Region: GPH_sucrose; TIGR01301 376686003422 Transcriptional regulators [Transcription]; Region: PurR; COG1609 376686003423 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 376686003424 DNA binding site [nucleotide binding] 376686003425 domain linker motif; other site 376686003426 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 376686003427 ligand binding site [chemical binding]; other site 376686003428 dimerization interface [polypeptide binding]; other site 376686003429 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686003430 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686003431 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 376686003432 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 376686003433 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686003434 SusE outer membrane protein; Region: SusE; pfam14292 376686003435 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 376686003436 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_4; cd11350 376686003437 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 376686003438 active site 376686003439 catalytic site [active] 376686003440 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686003441 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 376686003442 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 376686003443 putative substrate translocation pore; other site 376686003444 Type III pantothenate kinase; Region: Pan_kinase; cl09130 376686003445 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 376686003446 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 376686003447 Domain of unknown function DUF21; Region: DUF21; pfam01595 376686003448 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 376686003449 Transporter associated domain; Region: CorC_HlyC; cl08393 376686003450 SurA N-terminal domain; Region: SurA_N_3; cl07813 376686003451 PPIC-type PPIASE domain; Region: Rotamase; cl08278 376686003452 PPIC-type PPIASE domain; Region: Rotamase; cl08278 376686003453 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 376686003454 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 376686003455 homodimer interface [polypeptide binding]; other site 376686003456 NAD binding site [chemical binding]; other site 376686003457 catalytic residues [active] 376686003458 substrate binding pocket [chemical binding]; other site 376686003459 flexible flap; other site 376686003460 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 376686003461 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 376686003462 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 376686003463 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 376686003464 putative substrate translocation pore; other site 376686003465 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 376686003466 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 376686003467 putative substrate translocation pore; other site 376686003468 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 376686003469 Protein Disulfide Isomerase (PDIa) family, redox active TRX domains; composed of eukaryotic proteins involved in oxidative protein folding in the endoplasmic reticulum (ER) by acting as catalysts and folding assistants. Members of this family include PDI...; Region: PDI_a_family; cd02961 376686003470 catalytic residues [active] 376686003471 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 376686003472 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 376686003473 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 376686003474 Competence protein; Region: Competence; cl00471 376686003475 NlpC/P60 family; Region: NLPC_P60; cl11438 376686003476 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 376686003477 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 376686003478 Survival protein SurE; Region: SurE; cl00448 376686003479 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 376686003480 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 376686003481 protein binding site [polypeptide binding]; other site 376686003482 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 376686003483 Catalytic dyad [active] 376686003484 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 376686003485 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; cd00091 376686003486 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 376686003487 active site 376686003488 substrate binding site [chemical binding]; other site 376686003489 Mg2+ binding site [ion binding]; other site 376686003490 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 376686003491 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 376686003492 substrate binding site [chemical binding]; other site 376686003493 hexamer interface [polypeptide binding]; other site 376686003494 metal binding site [ion binding]; metal-binding site 376686003495 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 376686003496 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 376686003497 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686003498 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 376686003499 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 376686003500 DNA binding residues [nucleotide binding] 376686003501 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 376686003502 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 376686003503 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 376686003504 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686003505 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 376686003506 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686003507 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 376686003508 active site 376686003509 phosphorylation site [posttranslational modification] 376686003510 intermolecular recognition site; other site 376686003511 dimerization interface [polypeptide binding]; other site 376686003512 LytTr DNA-binding domain; Region: LytTR; cl04498 376686003513 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 376686003514 TPR motif; other site 376686003515 binding surface 376686003516 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686003517 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686003518 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 376686003519 ATP binding site [chemical binding]; other site 376686003520 Mg2+ binding site [ion binding]; other site 376686003521 G-X-G motif; other site 376686003522 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 376686003523 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 376686003524 RNase E interface [polypeptide binding]; other site 376686003525 trimer interface [polypeptide binding]; other site 376686003526 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 376686003527 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 376686003528 RNase E interface [polypeptide binding]; other site 376686003529 trimer interface [polypeptide binding]; other site 376686003530 active site 376686003531 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 376686003532 putative nucleic acid binding region [nucleotide binding]; other site 376686003533 G-X-X-G motif; other site 376686003534 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 376686003535 RNA binding site [nucleotide binding]; other site 376686003536 domain interface; other site 376686003537 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 376686003538 16S/18S rRNA binding site [nucleotide binding]; other site 376686003539 S13e-L30e interaction site [polypeptide binding]; other site 376686003540 25S rRNA binding site [nucleotide binding]; other site 376686003541 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 376686003542 GAF domain; Region: GAF; cl15785 376686003543 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 376686003544 exosortase F-associated protein; Region: flavo_near_exo; TIGR04127 376686003545 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 376686003546 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 376686003547 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 376686003548 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 376686003549 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 376686003550 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 376686003551 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 376686003552 rod shape-determining protein MreC; Region: MreC; pfam04085 376686003553 rod shape-determining protein MreB; Provisional; Region: PRK13927 376686003554 Cell division protein FtsA; Region: FtsA; cl11496 376686003555 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 376686003556 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 376686003557 purine monophosphate binding site [chemical binding]; other site 376686003558 dimer interface [polypeptide binding]; other site 376686003559 putative catalytic residues [active] 376686003560 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 376686003561 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 376686003562 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 376686003563 FtsX-like permease family; Region: FtsX; cl15850 376686003564 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 376686003565 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 376686003566 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 376686003567 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 376686003568 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 376686003569 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 376686003570 active site 376686003571 intersubunit interface [polypeptide binding]; other site 376686003572 zinc binding site [ion binding]; other site 376686003573 Na+ binding site [ion binding]; other site 376686003574 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 376686003575 Surface antigen; Region: Bac_surface_Ag; cl03097 376686003576 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 376686003577 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 376686003578 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 376686003579 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 376686003580 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 376686003581 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 376686003582 S-adenosylmethionine binding site [chemical binding]; other site 376686003583 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 376686003584 folate binding site [chemical binding]; other site 376686003585 NADP+ binding site [chemical binding]; other site 376686003586 2TM domain; Region: 2TM; pfam13239 376686003587 N-terminal Early set domain associated with the catalytic domain of isoamylase-like (also called glycogen 6-glucanohydrolase) proteins; Region: E_set_Isoamylase_like_N; cd07184 376686003588 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 376686003589 dimerization interface [polypeptide binding]; other site 376686003590 active site 376686003591 Bifunctional nuclease; Region: DNase-RNase; cl00553 376686003592 UvrB/uvrC motif; Region: UVR; pfam02151 376686003593 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 376686003594 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 376686003595 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 376686003596 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 376686003597 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 376686003598 Ligand binding site [chemical binding]; other site 376686003599 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 376686003600 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 376686003601 alpha subunit interface [polypeptide binding]; other site 376686003602 TPP binding site [chemical binding]; other site 376686003603 heterodimer interface [polypeptide binding]; other site 376686003604 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 376686003605 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686003606 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 376686003607 endonuclease III; Region: ENDO3c; smart00478 376686003608 minor groove reading motif; other site 376686003609 helix-hairpin-helix signature motif; other site 376686003610 substrate binding pocket [chemical binding]; other site 376686003611 active site 376686003612 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 376686003613 dimer interface [polypeptide binding]; other site 376686003614 substrate binding site [chemical binding]; other site 376686003615 metal binding sites [ion binding]; metal-binding site 376686003616 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 376686003617 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 376686003618 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 376686003619 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 376686003620 Substrate-binding site [chemical binding]; other site 376686003621 Substrate specificity [chemical binding]; other site 376686003622 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 376686003623 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686003624 catecholate siderophore receptor CirA; Provisional; Region: PRK10064 376686003625 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686003626 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 376686003627 S-adenosylmethionine synthetase; Validated; Region: PRK05250 376686003628 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 376686003629 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 376686003630 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 376686003631 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 376686003632 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 376686003633 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 376686003634 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 376686003635 homodimer interface [polypeptide binding]; other site 376686003636 substrate-cofactor binding pocket; other site 376686003637 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686003638 catalytic residue [active] 376686003639 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 376686003640 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686003641 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 376686003642 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 376686003643 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 376686003644 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 376686003645 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 376686003646 nucleotide binding site [chemical binding]; other site 376686003647 substrate binding site [chemical binding]; other site 376686003648 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 376686003649 dimer interface [polypeptide binding]; other site 376686003650 putative threonine allosteric regulatory site; other site 376686003651 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686003652 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 376686003653 OsmC-like protein; Region: OsmC; cl00767 376686003654 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 376686003655 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 376686003656 homodimer interface [polypeptide binding]; other site 376686003657 substrate-cofactor binding pocket; other site 376686003658 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686003659 catalytic residue [active] 376686003660 RDD family; Region: RDD; cl00746 376686003661 Rrf2 family protein; Region: rrf2_super; TIGR00738 376686003662 Helix-turn-helix domains; Region: HTH; cl00088 376686003663 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 376686003664 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 376686003665 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 376686003666 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 376686003667 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 376686003668 Active Sites [active] 376686003669 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 376686003670 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 376686003671 Active Sites [active] 376686003672 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 376686003673 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 376686003674 CysD dimerization site [polypeptide binding]; other site 376686003675 G1 box; other site 376686003676 putative GEF interaction site [polypeptide binding]; other site 376686003677 GTP/Mg2+ binding site [chemical binding]; other site 376686003678 Switch I region; other site 376686003679 G2 box; other site 376686003680 G3 box; other site 376686003681 Switch II region; other site 376686003682 G4 box; other site 376686003683 G5 box; other site 376686003684 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 376686003685 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 376686003686 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 376686003687 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 376686003688 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 376686003689 HEPN domain; Region: HEPN; cl00824 376686003690 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 376686003691 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 376686003692 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686003693 precorrin-2 dehydrogenase; Reviewed; Region: PRK06718 376686003694 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 376686003695 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 376686003696 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 376686003697 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 376686003698 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 376686003699 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 376686003700 substrate binding pocket [chemical binding]; other site 376686003701 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 376686003702 B12 binding site [chemical binding]; other site 376686003703 cobalt ligand [ion binding]; other site 376686003704 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 376686003705 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 376686003706 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 376686003707 FAD binding site [chemical binding]; other site 376686003708 Methyltransferase domain; Region: Methyltransf_31; pfam13847 376686003709 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 376686003710 S-adenosylmethionine binding site [chemical binding]; other site 376686003711 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 376686003712 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 376686003713 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686003714 catalytic residue [active] 376686003715 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 376686003716 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 376686003717 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686003718 Walker A/P-loop; other site 376686003719 ATP binding site [chemical binding]; other site 376686003720 Q-loop/lid; other site 376686003721 ABC transporter signature motif; other site 376686003722 Walker B; other site 376686003723 D-loop; other site 376686003724 H-loop/switch region; other site 376686003725 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 376686003726 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 376686003727 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 376686003728 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 376686003729 THF binding site; other site 376686003730 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 376686003731 substrate binding site [chemical binding]; other site 376686003732 THF binding site; other site 376686003733 zinc-binding site [ion binding]; other site 376686003734 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 376686003735 Helix-turn-helix domains; Region: HTH; cl00088 376686003736 Helix-turn-helix domains; Region: HTH; cl00088 376686003737 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 376686003738 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 376686003739 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 376686003740 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 376686003741 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 376686003742 TPP-binding site; other site 376686003743 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 376686003744 PYR/PP interface [polypeptide binding]; other site 376686003745 dimer interface [polypeptide binding]; other site 376686003746 TPP binding site [chemical binding]; other site 376686003747 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 376686003748 Rotavirus VP2 protein; Region: Rota_VP2; pfam05087 376686003749 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 376686003750 nucleoside/Zn binding site; other site 376686003751 dimer interface [polypeptide binding]; other site 376686003752 catalytic motif [active] 376686003753 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 376686003754 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 376686003755 MG2 domain; Region: A2M_N; pfam01835 376686003756 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 376686003757 Alpha-2-macroglobulin family; Region: A2M; pfam00207 376686003758 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 376686003759 surface patch; other site 376686003760 thioester region; other site 376686003761 specificity defining residues; other site 376686003762 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 376686003763 Transglycosylase; Region: Transgly; cl07896 376686003764 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 376686003765 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 376686003766 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 376686003767 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 376686003768 homodimer interface [polypeptide binding]; other site 376686003769 oligonucleotide binding site [chemical binding]; other site 376686003770 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 376686003771 IHF - DNA interface [nucleotide binding]; other site 376686003772 IHF dimer interface [polypeptide binding]; other site 376686003773 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 376686003774 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 376686003775 minor groove reading motif; other site 376686003776 helix-hairpin-helix signature motif; other site 376686003777 substrate binding pocket [chemical binding]; other site 376686003778 active site 376686003779 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 376686003780 DNA binding and oxoG recognition site [nucleotide binding] 376686003781 Predicted membrane protein (DUF2085); Region: DUF2085; cl01570 376686003782 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 376686003783 dimer interface [polypeptide binding]; other site 376686003784 ssDNA binding site [nucleotide binding]; other site 376686003785 tetramer (dimer of dimers) interface [polypeptide binding]; other site 376686003786 gliding motility-associated protein GldE; Region: GldE; TIGR03520 376686003787 Domain of unknown function DUF21; Region: DUF21; pfam01595 376686003788 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 376686003789 Transporter associated domain; Region: CorC_HlyC; cl08393 376686003790 gliding motility-associated lipoprotein GldD; Region: GldD_lipo; TIGR03512 376686003791 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 376686003792 metal-binding site [ion binding] 376686003793 EamA-like transporter family; Region: EamA; cl01037 376686003794 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 376686003795 EamA-like transporter family; Region: EamA; cl01037 376686003796 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 376686003797 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 376686003798 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 376686003799 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 376686003800 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 376686003801 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 376686003802 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 376686003803 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 376686003804 AsmA-like C-terminal region; Region: AsmA_2; cl15864 376686003805 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 376686003806 active site 376686003807 dinuclear metal binding site [ion binding]; other site 376686003808 dimerization interface [polypeptide binding]; other site 376686003809 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686003810 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 376686003811 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 376686003812 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 376686003813 active site 376686003814 Zn binding site [ion binding]; other site 376686003815 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 376686003816 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 376686003817 E3 interaction surface; other site 376686003818 lipoyl attachment site [posttranslational modification]; other site 376686003819 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 376686003820 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 376686003821 E3 interaction surface; other site 376686003822 lipoyl attachment site [posttranslational modification]; other site 376686003823 e3 binding domain; Region: E3_binding; pfam02817 376686003824 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 376686003825 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 376686003826 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 376686003827 tetramer interface [polypeptide binding]; other site 376686003828 TPP-binding site [chemical binding]; other site 376686003829 heterodimer interface [polypeptide binding]; other site 376686003830 phosphorylation loop region [posttranslational modification] 376686003831 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 376686003832 active site 376686003833 catalytic motif [active] 376686003834 Zn binding site [ion binding]; other site 376686003835 Peptidase C25 family N-terminal domain, found in Arg-gingipain (Rgp), Lys-gingipain (Kgp) and related proteins; Region: Peptidase_C25_N; cd02258 376686003836 active site 376686003837 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 376686003838 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 376686003839 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 376686003840 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 376686003841 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 376686003842 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 376686003843 DNA-directed RNA polymerase specialized sigma subunit [Transcription]; Region: FliA; COG1191 376686003844 Helix-turn-helix domains; Region: HTH; cl00088 376686003845 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686003846 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686003847 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 376686003848 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 376686003849 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686003850 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 376686003851 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 376686003852 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 376686003853 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 376686003854 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 376686003855 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 376686003856 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 376686003857 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686003858 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 376686003859 putative catalytic site [active] 376686003860 putative metal binding site [ion binding]; other site 376686003861 putative phosphate binding site [ion binding]; other site 376686003862 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 376686003863 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 376686003864 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 376686003865 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 376686003866 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 376686003867 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686003868 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 376686003869 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 376686003870 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 376686003871 Protein of unknown function (DUF419); Region: DUF419; cl15265 376686003872 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 376686003873 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 376686003874 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 376686003875 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 376686003876 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686003877 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 376686003878 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 376686003879 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 376686003880 DNA binding site [nucleotide binding] 376686003881 active site 376686003882 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 376686003883 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 376686003884 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 376686003885 oligomerization interface [polypeptide binding]; other site 376686003886 active site 376686003887 NAD+ binding site [chemical binding]; other site 376686003888 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 376686003889 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 376686003890 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 376686003891 heme-binding site [chemical binding]; other site 376686003892 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 376686003893 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 376686003894 ligand binding site [chemical binding]; other site 376686003895 flexible hinge region; other site 376686003896 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 376686003897 non-specific DNA interactions [nucleotide binding]; other site 376686003898 DNA binding site [nucleotide binding] 376686003899 sequence specific DNA binding site [nucleotide binding]; other site 376686003900 putative cAMP binding site [chemical binding]; other site 376686003901 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 376686003902 phosphate binding site [ion binding]; other site 376686003903 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 376686003904 AAA domain; Region: AAA_28; pfam13521 376686003905 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686003906 Domain of unknown function (DUF4301); Region: DUF4301; pfam14134 376686003907 RF-1 domain; Region: RF-1; cl02875 376686003908 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686003909 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 376686003910 N-terminal plug; other site 376686003911 ligand-binding site [chemical binding]; other site 376686003912 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 376686003913 iron-sulfur cluster [ion binding]; other site 376686003914 [2Fe-2S] cluster binding site [ion binding]; other site 376686003915 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 376686003916 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 376686003917 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 376686003918 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 376686003919 nucleotide binding site/active site [active] 376686003920 HIT family signature motif; other site 376686003921 catalytic residue [active] 376686003922 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 376686003923 dimer interface [polypeptide binding]; other site 376686003924 phosphorylation site [posttranslational modification] 376686003925 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 376686003926 ATP binding site [chemical binding]; other site 376686003927 Mg2+ binding site [ion binding]; other site 376686003928 G-X-G motif; other site 376686003929 Flavin Reductases; Region: FlaRed; cl00801 376686003930 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 376686003931 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 376686003932 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 376686003933 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 376686003934 MOSC domain; Region: MOSC; pfam03473 376686003935 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 376686003936 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 376686003937 ATP binding site [chemical binding]; other site 376686003938 substrate interface [chemical binding]; other site 376686003939 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 376686003940 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 376686003941 FeS/SAM binding site; other site 376686003942 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 376686003943 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 376686003944 ThiS interaction site; other site 376686003945 putative active site [active] 376686003946 tetramer interface [polypeptide binding]; other site 376686003947 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 376686003948 thiamine phosphate binding site [chemical binding]; other site 376686003949 active site 376686003950 pyrophosphate binding site [ion binding]; other site 376686003951 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 376686003952 substrate binding site [chemical binding]; other site 376686003953 dimer interface [polypeptide binding]; other site 376686003954 ATP binding site [chemical binding]; other site 376686003955 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 376686003956 active site 376686003957 thiamine phosphate binding site [chemical binding]; other site 376686003958 pyrophosphate binding site [ion binding]; other site 376686003959 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 376686003960 ThiC-associated domain; Region: ThiC-associated; pfam13667 376686003961 ThiC family; Region: ThiC; cl08031 376686003962 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 376686003963 thiS-thiF/thiG interaction site; other site 376686003964 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 376686003965 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 376686003966 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 376686003967 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 376686003968 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 376686003969 active site 376686003970 Zn binding site [ion binding]; other site 376686003971 elongation factor Ts; Provisional; Region: tsf; PRK09377 376686003972 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 376686003973 Elongation factor TS; Region: EF_TS; pfam00889 376686003974 Elongation factor TS; Region: EF_TS; pfam00889 376686003975 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 376686003976 rRNA interaction site [nucleotide binding]; other site 376686003977 S8 interaction site; other site 376686003978 putative laminin-1 binding site; other site 376686003979 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 376686003980 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 376686003981 23S rRNA interface [nucleotide binding]; other site 376686003982 L3 interface [polypeptide binding]; other site 376686003983 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 376686003984 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 376686003985 Transcriptional regulators [Transcription]; Region: PurR; COG1609 376686003986 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 376686003987 DNA binding site [nucleotide binding] 376686003988 domain linker motif; other site 376686003989 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 376686003990 dimerization interface [polypeptide binding]; other site 376686003991 ligand binding site [chemical binding]; other site 376686003992 DNA polymerase I; Provisional; Region: PRK05755 376686003993 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 376686003994 active site 376686003995 metal binding site 1 [ion binding]; metal-binding site 376686003996 putative 5' ssDNA interaction site; other site 376686003997 metal binding site 3; metal-binding site 376686003998 metal binding site 2 [ion binding]; metal-binding site 376686003999 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 376686004000 putative DNA binding site [nucleotide binding]; other site 376686004001 putative metal binding site [ion binding]; other site 376686004002 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 376686004003 active site 376686004004 catalytic site [active] 376686004005 substrate binding site [chemical binding]; other site 376686004006 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 376686004007 active site 376686004008 DNA binding site [nucleotide binding] 376686004009 catalytic site [active] 376686004010 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 376686004011 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 376686004012 active site 376686004013 phosphorylation site [posttranslational modification] 376686004014 intermolecular recognition site; other site 376686004015 dimerization interface [polypeptide binding]; other site 376686004016 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 376686004017 DNA binding site [nucleotide binding] 376686004018 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686004019 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 376686004020 ATP binding site [chemical binding]; other site 376686004021 Mg2+ binding site [ion binding]; other site 376686004022 G-X-G motif; other site 376686004023 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 376686004024 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 376686004025 putative active site [active] 376686004026 putative metal binding site [ion binding]; other site 376686004027 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 376686004028 catalytic residues [active] 376686004029 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 376686004030 NodB motif; other site 376686004031 active site 376686004032 catalytic site [active] 376686004033 metal binding site [ion binding]; metal-binding site 376686004034 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 376686004035 universal stress protein UspE; Provisional; Region: PRK11175 376686004036 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 376686004037 Ligand Binding Site [chemical binding]; other site 376686004038 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 376686004039 Ligand Binding Site [chemical binding]; other site 376686004040 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 376686004041 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 376686004042 transcription termination factor NusA; Region: NusA; TIGR01953 376686004043 NusA N-terminal domain; Region: NusA_N; pfam08529 376686004044 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 376686004045 RNA binding site [nucleotide binding]; other site 376686004046 homodimer interface [polypeptide binding]; other site 376686004047 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 376686004048 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 376686004049 G-X-X-G motif; other site 376686004050 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 376686004051 translation initiation factor IF-2; Region: IF-2; TIGR00487 376686004052 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 376686004053 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 376686004054 G1 box; other site 376686004055 putative GEF interaction site [polypeptide binding]; other site 376686004056 GTP/Mg2+ binding site [chemical binding]; other site 376686004057 Switch I region; other site 376686004058 G2 box; other site 376686004059 G3 box; other site 376686004060 Switch II region; other site 376686004061 G4 box; other site 376686004062 G5 box; other site 376686004063 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 376686004064 Translation-initiation factor 2; Region: IF-2; pfam11987 376686004065 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 376686004066 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 376686004067 active site 376686004068 Sporulation related domain; Region: SPOR; cl10051 376686004069 Cytochrome c; Region: Cytochrom_C; cl11414 376686004070 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 376686004071 heme-binding residues [chemical binding]; other site 376686004072 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 376686004073 molybdopterin cofactor binding site; other site 376686004074 The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region...; Region: MopB_CT_PHLH; cd02784 376686004075 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 376686004076 Polysulphide reductase, NrfD; Region: NrfD; cl01295 376686004077 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 376686004078 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 376686004079 Cytochrome c; Region: Cytochrom_C; cl11414 376686004080 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 376686004081 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 376686004082 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 376686004083 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 376686004084 D-pathway; other site 376686004085 Low-spin heme binding site [chemical binding]; other site 376686004086 Putative water exit pathway; other site 376686004087 Binuclear center (active site) [active] 376686004088 K-pathway; other site 376686004089 Putative proton exit pathway; other site 376686004090 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 376686004091 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 376686004092 Walker A motif; other site 376686004093 ATP binding site [chemical binding]; other site 376686004094 Walker B motif; other site 376686004095 arginine finger; other site 376686004096 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 376686004097 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 376686004098 Cytochrome P450; Region: p450; pfam00067 376686004099 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 376686004100 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 376686004101 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686004102 HYR domain; Region: HYR; pfam02494 376686004103 HYR domain; Region: HYR; pfam02494 376686004104 HYR domain; Region: HYR; pfam02494 376686004105 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686004106 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686004107 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 376686004108 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 376686004109 TPR motif; other site 376686004110 TPR repeat; Region: TPR_11; pfam13414 376686004111 binding surface 376686004112 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686004113 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686004114 ligand binding site [chemical binding]; other site 376686004115 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 376686004116 sequence-specific DNA binding site [nucleotide binding]; other site 376686004117 salt bridge; other site 376686004118 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 376686004119 FOG: CBS domain [General function prediction only]; Region: COG0517 376686004120 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 376686004121 Malic enzyme, N-terminal domain; Region: malic; pfam00390 376686004122 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 376686004123 putative NAD(P) binding site [chemical binding]; other site 376686004124 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 376686004125 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 376686004126 RuvA N terminal domain; Region: RuvA_N; pfam01330 376686004127 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 376686004128 Motility related/secretion protein; Region: SprA_N; pfam14349 376686004129 Motility related/secretion protein; Region: SprA_N; pfam14349 376686004130 Motility related/secretion protein; Region: SprA_N; pfam14349 376686004131 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 376686004132 lipoyl attachment site [posttranslational modification]; other site 376686004133 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 376686004134 catalytic residue [active] 376686004135 Gram-negative bacterial tonB protein; Region: TonB; cl10048 376686004136 UbiA prenyltransferase family; Region: UbiA; cl00337 376686004137 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 376686004138 Subunit I/III interface [polypeptide binding]; other site 376686004139 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 376686004140 Subunit I/III interface [polypeptide binding]; other site 376686004141 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 376686004142 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 376686004143 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 376686004144 Cu(I) binding site [ion binding]; other site 376686004145 Protein of unknown function (DUF420); Region: DUF420; cl00989 376686004146 Domain of unknown function (DUF4403); Region: DUF4403; pfam14356 376686004147 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 376686004148 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 376686004149 Walker A/P-loop; other site 376686004150 ATP binding site [chemical binding]; other site 376686004151 Q-loop/lid; other site 376686004152 ABC transporter signature motif; other site 376686004153 Walker B; other site 376686004154 D-loop; other site 376686004155 H-loop/switch region; other site 376686004156 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 376686004157 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 376686004158 FtsX-like permease family; Region: FtsX; cl15850 376686004159 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 376686004160 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 376686004161 FtsX-like permease family; Region: FtsX; cl15850 376686004162 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686004163 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 376686004164 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 376686004165 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 376686004166 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686004167 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 376686004168 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 376686004169 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 376686004170 Conserved TM helix; Region: TM_helix; pfam05552 376686004171 Mechanosensitive ion channel; Region: MS_channel; pfam00924 376686004172 Substrate binding subunit of ER-derived-lipid transporter; Provisional; Region: PLN03094 376686004173 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 376686004174 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 376686004175 NifU-like domain; Region: NifU; cl00484 376686004176 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 376686004177 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 376686004178 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 376686004179 trimer interface [polypeptide binding]; other site 376686004180 putative metal binding site [ion binding]; other site 376686004181 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686004182 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 376686004183 active site 376686004184 phosphorylation site [posttranslational modification] 376686004185 intermolecular recognition site; other site 376686004186 dimerization interface [polypeptide binding]; other site 376686004187 LytTr DNA-binding domain; Region: LytTR; cl04498 376686004188 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686004189 active site 376686004190 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 376686004191 Histidine kinase; Region: His_kinase; pfam06580 376686004192 Kelch motif; Region: Kelch_1; cl02701 376686004193 mutatrotase, YjhT family; Region: muta_rot_YjhT; TIGR03547 376686004194 Kelch motif; Region: Kelch_1; cl02701 376686004195 kelch-like protein; Provisional; Region: PHA03098 376686004196 Kelch motif; Region: Kelch_1; cl02701 376686004197 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 376686004198 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 376686004199 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 376686004200 periplasmic chaperone; Provisional; Region: PRK10780 376686004201 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 376686004202 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 376686004203 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 376686004204 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 376686004205 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 376686004206 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 376686004207 Surface antigen; Region: Bac_surface_Ag; cl03097 376686004208 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 376686004209 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 376686004210 catalytic residue [active] 376686004211 putative FPP diphosphate binding site; other site 376686004212 putative FPP binding hydrophobic cleft; other site 376686004213 dimer interface [polypeptide binding]; other site 376686004214 putative IPP diphosphate binding site; other site 376686004215 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 376686004216 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 376686004217 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 376686004218 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 376686004219 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 376686004220 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 376686004221 active site 376686004222 hydrophilic channel; other site 376686004223 dimerization interface [polypeptide binding]; other site 376686004224 catalytic residues [active] 376686004225 active site lid [active] 376686004226 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686004227 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 376686004228 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 376686004229 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 376686004230 acyl-CoA esterase; Provisional; Region: PRK10673 376686004231 Membrane protein of unknown function; Region: DUF360; cl00850 376686004232 trigger factor; Region: tig; TIGR00115 376686004233 Clp protease; Region: CLP_protease; pfam00574 376686004234 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 376686004235 oligomer interface [polypeptide binding]; other site 376686004236 active site residues [active] 376686004237 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 376686004238 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 376686004239 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 376686004240 Walker A motif; other site 376686004241 ATP binding site [chemical binding]; other site 376686004242 Walker B motif; other site 376686004243 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 376686004244 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 376686004245 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 376686004246 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 376686004247 conserved cys residue [active] 376686004248 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686004249 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_24; cd09012 376686004250 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686004251 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_4; cd08897 376686004252 putative hydrophobic ligand binding site [chemical binding]; other site 376686004253 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_4; cd08897 376686004254 putative hydrophobic ligand binding site [chemical binding]; other site 376686004255 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_24; cd09012 376686004256 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686004257 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 376686004258 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 376686004259 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686004260 dimer interface [polypeptide binding]; other site 376686004261 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 376686004262 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 376686004263 phosphoserine phosphatase SerB; Region: serB; TIGR00338 376686004264 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 376686004265 motif II; other site 376686004266 GH3 auxin-responsive promoter; Region: GH3; cl04006 376686004267 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 376686004268 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 376686004269 putative active site [active] 376686004270 AsmA-like C-terminal region; Region: AsmA_2; cl15864 376686004271 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 376686004272 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 376686004273 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 376686004274 tandem repeat interface [polypeptide binding]; other site 376686004275 oligomer interface [polypeptide binding]; other site 376686004276 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 376686004277 active site residues [active] 376686004278 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 376686004279 oligomer interface [polypeptide binding]; other site 376686004280 tandem repeat interface [polypeptide binding]; other site 376686004281 active site residues [active] 376686004282 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 376686004283 catalytic center binding site [active] 376686004284 ATP binding site [chemical binding]; other site 376686004285 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 376686004286 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 376686004287 Substrate-binding site [chemical binding]; other site 376686004288 Substrate specificity [chemical binding]; other site 376686004289 A bacterial subgroup of the C-type lectin-like (CTLD) domain; a subgroup of bacterial protein domains homologous to the carbohydrate-recognition domains (CRDs) of the C-type lectins; Region: CLECT_VCBS; cd03603 376686004290 ligand binding surface [chemical binding]; other site 376686004291 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686004292 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 376686004293 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 376686004294 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 376686004295 MutS domain I; Region: MutS_I; pfam01624 376686004296 MutS domain II; Region: MutS_II; pfam05188 376686004297 MutS family domain IV; Region: MutS_IV; pfam05190 376686004298 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 376686004299 Walker A/P-loop; other site 376686004300 ATP binding site [chemical binding]; other site 376686004301 Q-loop/lid; other site 376686004302 ABC transporter signature motif; other site 376686004303 Walker B; other site 376686004304 D-loop; other site 376686004305 H-loop/switch region; other site 376686004306 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 376686004307 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 376686004308 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 376686004309 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 376686004310 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 376686004311 inhibitor-cofactor binding pocket; inhibition site 376686004312 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686004313 catalytic residue [active] 376686004314 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 376686004315 UDP-glucose 4-epimerase; Region: PLN02240 376686004316 NAD binding site [chemical binding]; other site 376686004317 homodimer interface [polypeptide binding]; other site 376686004318 active site 376686004319 substrate binding site [chemical binding]; other site 376686004320 EamA-like transporter family; Region: EamA; cl01037 376686004321 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 376686004322 EamA-like transporter family; Region: EamA; cl01037 376686004323 Acyl transferase domain; Region: Acyl_transf_1; cl08282 376686004324 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 376686004325 Cupin domain; Region: Cupin_2; cl09118 376686004326 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 376686004327 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686004328 YceI-like domain; Region: YceI; cl01001 376686004329 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 376686004330 Pirin-related protein [General function prediction only]; Region: COG1741 376686004331 Cupin domain; Region: Cupin_2; cl09118 376686004332 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 376686004333 non-specific DNA binding site [nucleotide binding]; other site 376686004334 salt bridge; other site 376686004335 sequence-specific DNA binding site [nucleotide binding]; other site 376686004336 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 376686004337 Domain of unknown function (DUF955); Region: DUF955; cl01076 376686004338 malate synthase A; Region: malate_syn_A; TIGR01344 376686004339 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 376686004340 active site 376686004341 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 376686004342 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 376686004343 tetramer interface [polypeptide binding]; other site 376686004344 active site 376686004345 Mg2+/Mn2+ binding site [ion binding]; other site 376686004346 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686004347 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 376686004348 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 376686004349 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 376686004350 ATP-grasp domain; Region: ATP-grasp_4; cl03087 376686004351 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 376686004352 Peptidase family U32; Region: Peptidase_U32; cl03113 376686004353 Collagenase; Region: DUF3656; pfam12392 376686004354 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 376686004355 aspartate aminotransferase; Provisional; Region: PRK05764 376686004356 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 376686004357 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686004358 homodimer interface [polypeptide binding]; other site 376686004359 catalytic residue [active] 376686004360 Fatty acid desaturase; Region: FA_desaturase; pfam00487 376686004361 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 376686004362 putative di-iron ligands [ion binding]; other site 376686004363 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 376686004364 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 376686004365 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 376686004366 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 376686004367 Glutamate binding site [chemical binding]; other site 376686004368 NAD binding site [chemical binding]; other site 376686004369 catalytic residues [active] 376686004370 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 376686004371 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 376686004372 ATP-dependent DNA ligase; Validated; Region: PRK09247 376686004373 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 376686004374 active site 376686004375 DNA binding site [nucleotide binding] 376686004376 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 376686004377 DNA binding site [nucleotide binding] 376686004378 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 376686004379 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 376686004380 ATP binding site [chemical binding]; other site 376686004381 putative Mg++ binding site [ion binding]; other site 376686004382 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 376686004383 nucleotide binding region [chemical binding]; other site 376686004384 ATP-binding site [chemical binding]; other site 376686004385 DEAD/H associated; Region: DEAD_assoc; pfam08494 376686004386 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 376686004387 putative active site [active] 376686004388 putative metal binding site [ion binding]; other site 376686004389 Protein of unknown function (DUF525); Region: DUF525; cl01119 376686004390 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 376686004391 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 376686004392 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 376686004393 ATP binding site [chemical binding]; other site 376686004394 putative Mg++ binding site [ion binding]; other site 376686004395 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 376686004396 nucleotide binding region [chemical binding]; other site 376686004397 ATP-binding site [chemical binding]; other site 376686004398 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 376686004399 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 376686004400 active site 376686004401 Protein of unknown function (DUF445); Region: DUF445; pfam04286 376686004402 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 376686004403 Sulfatase; Region: Sulfatase; cl10460 376686004404 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 376686004405 putative ligand binding site [chemical binding]; other site 376686004406 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 376686004407 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 376686004408 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 376686004409 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 376686004410 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 376686004411 active site pocket [active] 376686004412 oxyanion hole [active] 376686004413 catalytic triad [active] 376686004414 active site nucleophile [active] 376686004415 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686004416 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686004417 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 376686004418 Zn binding site [ion binding]; other site 376686004419 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 376686004420 PAP2_like_4 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_4; cd03395 376686004421 active site 376686004422 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686004423 O-methyltransferase; Region: Methyltransf_3; pfam01596 376686004424 YceI-like domain; Region: YceI; cl01001 376686004425 YceI-like domain; Region: YceI; cl01001 376686004426 YceI-like domain; Region: YceI; cl01001 376686004427 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 376686004428 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 376686004429 FeS/SAM binding site; other site 376686004430 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 376686004431 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 376686004432 substrate binding pocket [chemical binding]; other site 376686004433 chain length determination region; other site 376686004434 substrate-Mg2+ binding site; other site 376686004435 catalytic residues [active] 376686004436 aspartate-rich region 1; other site 376686004437 active site lid residues [active] 376686004438 aspartate-rich region 2; other site 376686004439 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 376686004440 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686004441 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 376686004442 DNA binding residues [nucleotide binding] 376686004443 DNA primase, catalytic core; Region: dnaG; TIGR01391 376686004444 CHC2 zinc finger; Region: zf-CHC2; cl15369 376686004445 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 376686004446 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 376686004447 active site 376686004448 metal binding site [ion binding]; metal-binding site 376686004449 interdomain interaction site; other site 376686004450 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 376686004451 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 376686004452 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 376686004453 active site 376686004454 phosphorylation site [posttranslational modification] 376686004455 intermolecular recognition site; other site 376686004456 dimerization interface [polypeptide binding]; other site 376686004457 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 376686004458 DNA binding residues [nucleotide binding] 376686004459 dimerization interface [polypeptide binding]; other site 376686004460 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 376686004461 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 376686004462 homodimer interface [polypeptide binding]; other site 376686004463 NAD binding pocket [chemical binding]; other site 376686004464 ATP binding pocket [chemical binding]; other site 376686004465 Mg binding site [ion binding]; other site 376686004466 active-site loop [active] 376686004467 gliding motility-associated lipoprotein GldB; Region: GldB_lipo; TIGR03514 376686004468 gliding motility-associated protein GldC; Region: GldC; TIGR03515 376686004469 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 376686004470 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 376686004471 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 376686004472 Predicted GTPase [General function prediction only]; Region: COG0218 376686004473 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 376686004474 G1 box; other site 376686004475 GTP/Mg2+ binding site [chemical binding]; other site 376686004476 Switch I region; other site 376686004477 G2 box; other site 376686004478 G3 box; other site 376686004479 Switch II region; other site 376686004480 G4 box; other site 376686004481 G5 box; other site 376686004482 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 376686004483 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 376686004484 nucleophilic elbow; other site 376686004485 catalytic triad; other site 376686004486 MraZ protein; Region: MraZ; pfam02381 376686004487 MraZ protein; Region: MraZ; pfam02381 376686004488 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 376686004489 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686004490 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 376686004491 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 376686004492 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 376686004493 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 376686004494 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 376686004495 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 376686004496 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 376686004497 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 376686004498 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 376686004499 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 376686004500 Mg++ binding site [ion binding]; other site 376686004501 putative catalytic motif [active] 376686004502 putative substrate binding site [chemical binding]; other site 376686004503 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 376686004504 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 376686004505 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 376686004506 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 376686004507 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 376686004508 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 376686004509 active site 376686004510 homodimer interface [polypeptide binding]; other site 376686004511 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 376686004512 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 376686004513 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 376686004514 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 376686004515 cell division protein FtsA; Region: ftsA; TIGR01174 376686004516 Cell division protein FtsA; Region: FtsA; cl11496 376686004517 Cell division protein FtsA; Region: FtsA; cl11496 376686004518 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 376686004519 nucleotide binding site [chemical binding]; other site 376686004520 SulA interaction site; other site 376686004521 GatB domain; Region: GatB_Yqey; cl11497 376686004522 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 376686004523 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 376686004524 Trp docking motif [polypeptide binding]; other site 376686004525 active site 376686004526 PQQ-like domain; Region: PQQ_2; pfam13360 376686004527 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 376686004528 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 376686004529 Leucine carboxyl methyltransferase; Region: LCM; cl01306 376686004530 Protein of unknown function (DUF962); Region: DUF962; cl01879 376686004531 Uncharacterized protein conserved in bacteria (DUF2199); Region: DUF2199; cl02048 376686004532 Protein of unknown function (DUF3754); Region: DUF3754; pfam12576 376686004533 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 376686004534 Catalytic site [active] 376686004535 Predicted membrane protein [Function unknown]; Region: COG4270 376686004536 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 376686004537 active site 376686004538 NTP binding site [chemical binding]; other site 376686004539 metal binding triad [ion binding]; metal-binding site 376686004540 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686004541 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 376686004542 active site 376686004543 phosphorylation site [posttranslational modification] 376686004544 intermolecular recognition site; other site 376686004545 dimerization interface [polypeptide binding]; other site 376686004546 LytTr DNA-binding domain; Region: LytTR; cl04498 376686004547 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 376686004548 Histidine kinase; Region: His_kinase; pfam06580 376686004549 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 376686004550 Sulfate transporter family; Region: Sulfate_transp; cl15842 376686004551 Sulfate transporter family; Region: Sulfate_transp; cl15842 376686004552 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 376686004553 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686004554 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686004555 short chain dehydrogenase; Provisional; Region: PRK06180 376686004556 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 376686004557 NADP binding site [chemical binding]; other site 376686004558 active site 376686004559 steroid binding site; other site 376686004560 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 376686004561 Sulfatase; Region: Sulfatase; cl10460 376686004562 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 376686004563 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 376686004564 ring oligomerisation interface [polypeptide binding]; other site 376686004565 ATP/Mg binding site [chemical binding]; other site 376686004566 stacking interactions; other site 376686004567 hinge regions; other site 376686004568 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 376686004569 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 376686004570 oligomerisation interface [polypeptide binding]; other site 376686004571 mobile loop; other site 376686004572 roof hairpin; other site 376686004573 Preprotein translocase SecG subunit; Region: SecG; cl09123 376686004574 Tetratricopeptide repeat; Region: TPR_6; pfam13174 376686004575 Lipopolysaccharide-assembly; Region: LptE; cl01125 376686004576 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 376686004577 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 376686004578 Walker A motif; other site 376686004579 ATP binding site [chemical binding]; other site 376686004580 Walker B motif; other site 376686004581 arginine finger; other site 376686004582 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 376686004583 Helix-turn-helix domains; Region: HTH; cl00088 376686004584 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; pfam13366 376686004585 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14329 376686004586 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 376686004587 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 376686004588 FeS/SAM binding site; other site 376686004589 TRAM domain; Region: TRAM; cl01282 376686004590 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 376686004591 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 376686004592 active site 376686004593 interdomain interaction site; other site 376686004594 putative metal-binding site [ion binding]; other site 376686004595 nucleotide binding site [chemical binding]; other site 376686004596 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 376686004597 domain I; other site 376686004598 DNA binding groove [nucleotide binding] 376686004599 phosphate binding site [ion binding]; other site 376686004600 domain II; other site 376686004601 domain III; other site 376686004602 nucleotide binding site [chemical binding]; other site 376686004603 catalytic site [active] 376686004604 domain IV; other site 376686004605 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 376686004606 Arginase family; Region: Arginase; cl00306 376686004607 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 376686004608 gliding motility-associated protein GldL; Region: GldL_gliding; TIGR03513 376686004609 gliding motility-associated protein GldM; Region: GldM_gliding; TIGR03517 376686004610 GldM N-terminal domain; Region: GldM_N; pfam12081 376686004611 GldM C-terminal domain; Region: GldM_C; pfam12080 376686004612 gliding motility associated protien GldN; Region: GldN; TIGR03523 376686004613 gliding motility associated protien GldN; Region: GldN; TIGR03523 376686004614 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 376686004615 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686004616 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 376686004617 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 376686004618 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 376686004619 ABC transporter; Region: ABC_tran_2; pfam12848 376686004620 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 376686004621 Uncharacterized conserved protein [Function unknown]; Region: COG4850 376686004622 Uncharacterized conserved protein (DUF2183); Region: DUF2183; pfam09949 376686004623 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 376686004624 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 376686004625 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 376686004626 Protein of unknown function (DUF1761); Region: DUF1761; pfam08570 376686004627 hypothetical protein; Provisional; Region: PLN03150 376686004628 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 376686004629 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 376686004630 Domain of unknown function (DUF4269); Region: DUF4269; pfam14091 376686004631 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 376686004632 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 376686004633 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in...; Region: Frataxin; cl00238 376686004634 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 376686004635 Uncharacterized conserved protein [Function unknown]; Region: COG3391 376686004636 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 376686004637 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 376686004638 N-terminal plug; other site 376686004639 ligand-binding site [chemical binding]; other site 376686004640 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 376686004641 GTPase Era; Reviewed; Region: era; PRK00089 376686004642 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 376686004643 G1 box; other site 376686004644 GTP/Mg2+ binding site [chemical binding]; other site 376686004645 Switch I region; other site 376686004646 G2 box; other site 376686004647 Switch II region; other site 376686004648 G3 box; other site 376686004649 G4 box; other site 376686004650 G5 box; other site 376686004651 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 376686004652 GTP-binding protein Der; Reviewed; Region: PRK00093 376686004653 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 376686004654 G1 box; other site 376686004655 GTP/Mg2+ binding site [chemical binding]; other site 376686004656 Switch I region; other site 376686004657 G2 box; other site 376686004658 Switch II region; other site 376686004659 G3 box; other site 376686004660 G4 box; other site 376686004661 G5 box; other site 376686004662 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 376686004663 G1 box; other site 376686004664 GTP/Mg2+ binding site [chemical binding]; other site 376686004665 Switch I region; other site 376686004666 G2 box; other site 376686004667 G3 box; other site 376686004668 Switch II region; other site 376686004669 G4 box; other site 376686004670 G5 box; other site 376686004671 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686004672 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 376686004673 LemA family; Region: LemA; cl00742 376686004674 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 376686004675 Protein of unknown function (DUF1266); Region: DUF1266; cl14673 376686004676 Protein of unknown function (DUF1266); Region: DUF1266; cl14673 376686004677 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686004678 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 376686004679 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 376686004680 N-terminal plug; other site 376686004681 ligand-binding site [chemical binding]; other site 376686004682 Helix-turn-helix domains; Region: HTH; cl00088 376686004683 Rrf2 family protein; Region: rrf2_super; TIGR00738 376686004684 Repair protein; Region: Repair_PSII; cl01535 376686004685 Repair protein; Region: Repair_PSII; cl01535 376686004686 LemA family; Region: LemA; cl00742 376686004687 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 376686004688 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 376686004689 DNA binding residues [nucleotide binding] 376686004690 Peptidase family M23; Region: Peptidase_M23; pfam01551 376686004691 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 376686004692 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 376686004693 motif 1; other site 376686004694 active site 376686004695 motif 2; other site 376686004696 motif 3; other site 376686004697 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 376686004698 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 376686004699 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 376686004700 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686004701 Walker A/P-loop; other site 376686004702 ATP binding site [chemical binding]; other site 376686004703 Q-loop/lid; other site 376686004704 ABC transporter signature motif; other site 376686004705 Walker B; other site 376686004706 D-loop; other site 376686004707 H-loop/switch region; other site 376686004708 GSCFA family; Region: GSCFA; pfam08885 376686004709 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 376686004710 active site 376686004711 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 376686004712 Family of unknown function (DUF490); Region: DUF490; pfam04357 376686004713 Family of unknown function (DUF490); Region: DUF490; pfam04357 376686004714 Surface antigen; Region: Bac_surface_Ag; cl03097 376686004715 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 376686004716 phenylalanine 4-monooxygenase; Provisional; Region: PRK14056 376686004717 Biopterin-dependent aromatic amino acid hydroxylase; a family of non-heme, iron(II)-dependent enzymes that includes prokaryotic and eukaryotic phenylalanine-4-hydroxylase (PheOH), eukaryotic tyrosine hydroxylase (TyrOH) and eukaryotic tryptophan...; Region: arom_aa_hydroxylase; cd00361 376686004718 cofactor binding site; other site 376686004719 metal binding site [ion binding]; metal-binding site 376686004720 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 376686004721 heme-binding site [chemical binding]; other site 376686004722 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 376686004723 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 376686004724 Ricin-type beta-trefoil; Region: RICIN; smart00458 376686004725 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 376686004726 putative sugar binding sites [chemical binding]; other site 376686004727 Q-X-W motif; other site 376686004728 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686004729 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 376686004730 tetramer interface [polypeptide binding]; other site 376686004731 threonine dehydratase; Validated; Region: PRK08639 376686004732 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686004733 catalytic residue [active] 376686004734 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 376686004735 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 376686004736 urocanate hydratase; Provisional; Region: PRK05414 376686004737 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 376686004738 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686004739 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 376686004740 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 376686004741 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686004742 catalytic residue [active] 376686004743 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 376686004744 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 376686004745 putative peptidoglycan binding site; other site 376686004746 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 376686004747 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 376686004748 inhibitor-cofactor binding pocket; inhibition site 376686004749 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686004750 catalytic residue [active] 376686004751 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 376686004752 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 376686004753 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686004754 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 376686004755 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 376686004756 dimer interface [polypeptide binding]; other site 376686004757 putative anticodon binding site; other site 376686004758 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 376686004759 motif 1; other site 376686004760 active site 376686004761 motif 2; other site 376686004762 motif 3; other site 376686004763 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 376686004764 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 376686004765 RNA/DNA hybrid binding site [nucleotide binding]; other site 376686004766 active site 376686004767 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686004768 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686004769 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 376686004770 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 376686004771 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686004772 Domain of unknown function (DUF4289); Region: DUF4289; pfam14121 376686004773 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 376686004774 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 376686004775 dimer interface [polypeptide binding]; other site 376686004776 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686004777 catalytic residue [active] 376686004778 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well...; Region: CBS_pair_PALP_assoc2; cd04609 376686004779 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 376686004780 PspC domain; Region: PspC; cl00864 376686004781 amino acid transporter; Region: 2A0306; TIGR00909 376686004782 Spore germination protein; Region: Spore_permease; cl15802 376686004783 Spore germination protein; Region: Spore_permease; cl15802 376686004784 The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators; Region: NR_LBD; cl11397 376686004785 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 376686004786 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 376686004787 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 376686004788 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 376686004789 FAD binding site [chemical binding]; other site 376686004790 homotetramer interface [polypeptide binding]; other site 376686004791 substrate binding pocket [chemical binding]; other site 376686004792 catalytic base [active] 376686004793 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 376686004794 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 376686004795 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 376686004796 DNA binding site [nucleotide binding] 376686004797 Int/Topo IB signature motif; other site 376686004798 active site 376686004799 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 376686004800 30S subunit binding site; other site 376686004801 elongation factor Tu; Reviewed; Region: PRK12735 376686004802 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 376686004803 G1 box; other site 376686004804 GEF interaction site [polypeptide binding]; other site 376686004805 GTP/Mg2+ binding site [chemical binding]; other site 376686004806 Switch I region; other site 376686004807 G2 box; other site 376686004808 G3 box; other site 376686004809 Switch II region; other site 376686004810 G4 box; other site 376686004811 G5 box; other site 376686004812 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 376686004813 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 376686004814 Antibiotic Binding Site [chemical binding]; other site 376686004815 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 376686004816 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 376686004817 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 376686004818 putative homodimer interface [polypeptide binding]; other site 376686004819 KOW motif; Region: KOW; cl00354 376686004820 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 376686004821 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 376686004822 23S rRNA interface [nucleotide binding]; other site 376686004823 L7/L12 interface [polypeptide binding]; other site 376686004824 putative thiostrepton binding site; other site 376686004825 L25 interface [polypeptide binding]; other site 376686004826 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 376686004827 mRNA/rRNA interface [nucleotide binding]; other site 376686004828 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 376686004829 23S rRNA interface [nucleotide binding]; other site 376686004830 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 376686004831 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 376686004832 core dimer interface [polypeptide binding]; other site 376686004833 peripheral dimer interface [polypeptide binding]; other site 376686004834 L10 interface [polypeptide binding]; other site 376686004835 L11 interface [polypeptide binding]; other site 376686004836 putative EF-Tu interaction site [polypeptide binding]; other site 376686004837 putative EF-G interaction site [polypeptide binding]; other site 376686004838 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; pfam04563 376686004839 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 376686004840 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 376686004841 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 376686004842 RPB12 interaction site [polypeptide binding]; other site 376686004843 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 376686004844 RPB11 interaction site [polypeptide binding]; other site 376686004845 RPB12 interaction site [polypeptide binding]; other site 376686004846 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 376686004847 RPB1 interaction site [polypeptide binding]; other site 376686004848 RPB11 interaction site [polypeptide binding]; other site 376686004849 RPB10 interaction site [polypeptide binding]; other site 376686004850 RPB3 interaction site [polypeptide binding]; other site 376686004851 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 376686004852 DNA-directed RNA polymerase subunit gamma; Provisional; Region: rpoC1; PRK02625 376686004853 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 376686004854 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 376686004855 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 376686004856 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 376686004857 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 376686004858 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 376686004859 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 376686004860 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 376686004861 DNA binding site [nucleotide binding] 376686004862 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 376686004863 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 376686004864 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 376686004865 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 376686004866 G1 box; other site 376686004867 putative GEF interaction site [polypeptide binding]; other site 376686004868 GTP/Mg2+ binding site [chemical binding]; other site 376686004869 Switch I region; other site 376686004870 G2 box; other site 376686004871 G3 box; other site 376686004872 Switch II region; other site 376686004873 G4 box; other site 376686004874 G5 box; other site 376686004875 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 376686004876 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 376686004877 Alpha amylase catalytic domain found in archaeal, bacterial, and plant Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_plant_AmyA; cd11314 376686004878 active site 376686004879 Ca binding site [ion binding]; other site 376686004880 catalytic site [active] 376686004881 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 376686004882 SurA N-terminal domain; Region: SurA_N_3; cl07813 376686004883 PPIC-type PPIASE domain; Region: Rotamase; cl08278 376686004884 PPIC-type PPIASE domain; Region: Rotamase; cl08278 376686004885 MoxR-like ATPases [General function prediction only]; Region: COG0714 376686004886 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 376686004887 Walker A motif; other site 376686004888 ATP binding site [chemical binding]; other site 376686004889 Walker B motif; other site 376686004890 arginine finger; other site 376686004891 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 376686004892 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 376686004893 substrate binding site [chemical binding]; other site 376686004894 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 376686004895 substrate binding site [chemical binding]; other site 376686004896 ligand binding site [chemical binding]; other site 376686004897 aconitate hydratase, mitochondrial; Region: aconitase_mito; TIGR01340 376686004898 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Mitochondrial; cd01584 376686004899 substrate binding site [chemical binding]; other site 376686004900 ligand binding site [chemical binding]; other site 376686004901 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 376686004902 substrate binding site [chemical binding]; other site 376686004903 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686004904 kelch-like protein; Provisional; Region: PHA03098 376686004905 Kelch motif; Region: Kelch_1; cl02701 376686004906 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 376686004907 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 376686004908 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 376686004909 putative peptidoglycan binding site; other site 376686004910 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 376686004911 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 376686004912 NlpC/P60 family; Region: NLPC_P60; cl11438 376686004913 Response regulator receiver domain; Region: Response_reg; pfam00072 376686004914 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 376686004915 active site 376686004916 phosphorylation site [posttranslational modification] 376686004917 intermolecular recognition site; other site 376686004918 dimerization interface [polypeptide binding]; other site 376686004919 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 376686004920 dimer interface [polypeptide binding]; other site 376686004921 phosphorylation site [posttranslational modification] 376686004922 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 376686004923 ATP binding site [chemical binding]; other site 376686004924 Mg2+ binding site [ion binding]; other site 376686004925 G-X-G motif; other site 376686004926 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 376686004927 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 376686004928 Walker A motif; other site 376686004929 ATP binding site [chemical binding]; other site 376686004930 Walker B motif; other site 376686004931 arginine finger; other site 376686004932 amino acid transporter; Region: 2A0306; TIGR00909 376686004933 Spore germination protein; Region: Spore_permease; cl15802 376686004934 Protein of unknown function (DUF1810); Region: DUF1810; cl02370 376686004935 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 376686004936 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 376686004937 putative phosphate binding site [ion binding]; other site 376686004938 putative catalytic site [active] 376686004939 active site 376686004940 metal binding site A [ion binding]; metal-binding site 376686004941 DNA binding site [nucleotide binding] 376686004942 putative AP binding site [nucleotide binding]; other site 376686004943 putative metal binding site B [ion binding]; other site 376686004944 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 376686004945 active site 376686004946 substrate binding site [chemical binding]; other site 376686004947 catalytic site [active] 376686004948 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 376686004949 GIY-YIG motif/motif A; other site 376686004950 active site 376686004951 catalytic site [active] 376686004952 putative DNA binding site [nucleotide binding]; other site 376686004953 metal binding site [ion binding]; metal-binding site 376686004954 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 376686004955 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 376686004956 active site 376686004957 DNA binding site [nucleotide binding] 376686004958 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 376686004959 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 376686004960 Catalytic site [active] 376686004961 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 376686004962 non-specific DNA binding site [nucleotide binding]; other site 376686004963 salt bridge; other site 376686004964 sequence-specific DNA binding site [nucleotide binding]; other site 376686004965 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 376686004966 Catalytic site [active] 376686004967 PAP2_like_5 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_5; cd03394 376686004968 active site 376686004969 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 376686004970 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 376686004971 dimerization interface [polypeptide binding]; other site 376686004972 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 376686004973 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 376686004974 dimer interface [polypeptide binding]; other site 376686004975 phosphorylation site [posttranslational modification] 376686004976 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 376686004977 ATP binding site [chemical binding]; other site 376686004978 Mg2+ binding site [ion binding]; other site 376686004979 G-X-G motif; other site 376686004980 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 376686004981 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 376686004982 Ligand Binding Site [chemical binding]; other site 376686004983 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 376686004984 K+-transporting ATPase, c chain; Region: KdpC; cl00944 376686004985 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 376686004986 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 376686004987 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 376686004988 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 376686004989 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 376686004990 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 376686004991 active site 376686004992 phosphorylation site [posttranslational modification] 376686004993 intermolecular recognition site; other site 376686004994 dimerization interface [polypeptide binding]; other site 376686004995 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 376686004996 Walker A motif; other site 376686004997 ATP binding site [chemical binding]; other site 376686004998 Walker B motif; other site 376686004999 arginine finger; other site 376686005000 Helix-turn-helix domains; Region: HTH; cl00088 376686005001 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 376686005002 putative active site [active] 376686005003 putative metal binding site [ion binding]; other site 376686005004 ABC-2 type transporter; Region: ABC2_membrane; cl11417 376686005005 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 376686005006 Zn binding site [ion binding]; other site 376686005007 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 376686005008 ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the...; Region: ABC_drug_resistance_like; cd03264 376686005009 Walker A/P-loop; other site 376686005010 ATP binding site [chemical binding]; other site 376686005011 Q-loop/lid; other site 376686005012 ABC transporter signature motif; other site 376686005013 Walker B; other site 376686005014 D-loop; other site 376686005015 H-loop/switch region; other site 376686005016 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 376686005017 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 376686005018 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 376686005019 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 376686005020 HYR domain; Region: HYR; pfam02494 376686005021 HYR domain; Region: HYR; pfam02494 376686005022 HYR domain; Region: HYR; pfam02494 376686005023 FG-GAP repeat; Region: FG-GAP; cl15299 376686005024 Family description; Region: VCBS; pfam13517 376686005025 Family description; Region: VCBS; pfam13517 376686005026 Family description; Region: VCBS; pfam13517 376686005027 FG-GAP repeat; Region: FG-GAP; cl15299 376686005028 HYR domain; Region: HYR; pfam02494 376686005029 HYR domain; Region: HYR; pfam02494 376686005030 HYR domain; Region: HYR; pfam02494 376686005031 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686005032 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 376686005033 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 376686005034 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 376686005035 active site 376686005036 phosphorylation site [posttranslational modification] 376686005037 intermolecular recognition site; other site 376686005038 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 376686005039 DNA binding residues [nucleotide binding] 376686005040 dimerization interface [polypeptide binding]; other site 376686005041 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 376686005042 binding surface 376686005043 TPR motif; other site 376686005044 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686005045 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686005046 Histidine kinase; Region: HisKA_3; pfam07730 376686005047 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 376686005048 ATP binding site [chemical binding]; other site 376686005049 Mg2+ binding site [ion binding]; other site 376686005050 G-X-G motif; other site 376686005051 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 376686005052 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 376686005053 Transcriptional regulators [Transcription]; Region: PurR; COG1609 376686005054 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 376686005055 DNA binding site [nucleotide binding] 376686005056 domain linker motif; other site 376686005057 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 376686005058 dimerization interface [polypeptide binding]; other site 376686005059 ligand binding site [chemical binding]; other site 376686005060 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686005061 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686005062 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 376686005063 substrate binding site [chemical binding]; other site 376686005064 Alpha-glucuronidase [Carbohydrate transport and metabolism]; Region: AguA; COG3661 376686005065 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 376686005066 Glycosyl hydrolase family 67 C-terminus; Region: Glyco_hydro_67C; pfam07477 376686005067 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 376686005068 classical (c) SDRs; Region: SDR_c; cd05233 376686005069 NAD(P) binding site [chemical binding]; other site 376686005070 active site 376686005071 mannonate dehydratase; Provisional; Region: PRK03906 376686005072 mannonate dehydratase; Region: uxuA; TIGR00695 376686005073 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 376686005074 putative symporter YagG; Provisional; Region: PRK09669 376686005075 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 376686005076 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 376686005077 substrate binding site [chemical binding]; other site 376686005078 active site 376686005079 Predicted transcriptional regulators [Transcription]; Region: COG1725 376686005080 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 376686005081 DNA-binding site [nucleotide binding]; DNA binding site 376686005082 Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability; Region: PBP1_FucR_like; cd06276 376686005083 putative dimerization interface [polypeptide binding]; other site 376686005084 putative ligand binding site [chemical binding]; other site 376686005085 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 376686005086 D-xylulose kinases, subgroup 2; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_2; cd07810 376686005087 putative N- and C-terminal domain interface [polypeptide binding]; other site 376686005088 putative active site [active] 376686005089 catalytic site [active] 376686005090 metal binding site [ion binding]; metal-binding site 376686005091 putative xylulose binding site [chemical binding]; other site 376686005092 putative ATP binding site [chemical binding]; other site 376686005093 putative homodimer interface [polypeptide binding]; other site 376686005094 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 376686005095 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 376686005096 active site 376686005097 intersubunit interactions; other site 376686005098 catalytic residue [active] 376686005099 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 376686005100 Helix-turn-helix domains; Region: HTH; cl00088 376686005101 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 376686005102 dimerization interface [polypeptide binding]; other site 376686005103 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 376686005104 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 376686005105 putative active site pocket [active] 376686005106 dimerization interface [polypeptide binding]; other site 376686005107 putative catalytic residue [active] 376686005108 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 376686005109 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686005110 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 376686005111 FecR protein; Region: FecR; pfam04773 376686005112 Secretin and TonB N terminus short domain; Region: STN; cl06624 376686005113 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686005114 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686005115 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 376686005116 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 376686005117 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 376686005118 starch binding outer membrane protein SusD; Region: SusD; cl15876 376686005119 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 376686005120 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 376686005121 catalytic residues [active] 376686005122 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 376686005123 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 376686005124 catalytic residues [active] 376686005125 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 376686005126 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 376686005127 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 376686005128 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 376686005129 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 376686005130 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 376686005131 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 376686005132 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 376686005133 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 376686005134 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 376686005135 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 376686005136 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686005137 catalytic residue [active] 376686005138 Helix-turn-helix domains; Region: HTH; cl00088 376686005139 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 376686005140 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686005141 Coenzyme A binding pocket [chemical binding]; other site 376686005142 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 376686005143 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 376686005144 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 376686005145 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 376686005146 dimer interface [polypeptide binding]; other site 376686005147 phosphorylation site [posttranslational modification] 376686005148 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 376686005149 ATP binding site [chemical binding]; other site 376686005150 Mg2+ binding site [ion binding]; other site 376686005151 G-X-G motif; other site 376686005152 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 376686005153 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 376686005154 active site 376686005155 phosphorylation site [posttranslational modification] 376686005156 intermolecular recognition site; other site 376686005157 dimerization interface [polypeptide binding]; other site 376686005158 Helix-turn-helix domains; Region: HTH; cl00088 376686005159 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686005160 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686005161 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686005162 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686005163 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 376686005164 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686005165 Endo-beta-mannanase [Carbohydrate transport and metabolism]; Region: COG3934 376686005166 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 376686005167 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686005168 active site 376686005169 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 376686005170 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 376686005171 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 376686005172 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 376686005173 active site 376686005174 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 376686005175 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 376686005176 active site 376686005177 catalytic residues [active] 376686005178 Glycosyl hydrolase family 43; Region: GH43_bXyl_2; cd08991 376686005179 active site 376686005180 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 376686005181 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 376686005182 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 376686005183 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 376686005184 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 376686005185 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 376686005186 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 376686005187 active site 376686005188 trimer interface [polypeptide binding]; other site 376686005189 allosteric site; other site 376686005190 active site lid [active] 376686005191 hexamer (dimer of trimers) interface [polypeptide binding]; other site 376686005192 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 376686005193 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686005194 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 376686005195 active site 376686005196 phosphorylation site [posttranslational modification] 376686005197 intermolecular recognition site; other site 376686005198 dimerization interface [polypeptide binding]; other site 376686005199 LytTr DNA-binding domain; Region: LytTR; cl04498 376686005200 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 376686005201 Histidine kinase; Region: His_kinase; pfam06580 376686005202 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 376686005203 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 376686005204 Sodium:solute symporter family; Region: SSF; cl00456 376686005205 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 376686005206 Domain of unknown function (DUF377); Region: DUF377; pfam04041 376686005207 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686005208 active site 376686005209 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_3; cd09620 376686005210 putative ligand binding site [chemical binding]; other site 376686005211 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 376686005212 Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked glycoproteins. This enzyme is an amidase located inside lysosomes. Mutation of this gene in humans causes a genetic disorder known as aspartylglycosaminuria (AGU)...; Region: Glycosylasparaginase; cd04513 376686005213 active site 376686005214 dimer interface [polypeptide binding]; other site 376686005215 catalytic nucleophile [active] 376686005216 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 376686005217 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 376686005218 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 376686005219 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 376686005220 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 376686005221 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 376686005222 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 376686005223 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 376686005224 active site 376686005225 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 376686005226 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 376686005227 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 376686005228 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 376686005229 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 376686005230 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 376686005231 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 376686005232 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 376686005233 PA14 domain; Region: PA14; cl08459 376686005234 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 376686005235 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686005236 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686005237 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686005238 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 376686005239 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 376686005240 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 376686005241 starch binding outer membrane protein SusD; Region: SusD; cl15876 376686005242 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl01922 376686005243 BNR repeat-like domain; Region: BNR_2; pfam13088 376686005244 Domain of unknown function (DUF718); Region: DUF718; cl01281 376686005245 M28 Zn-Peptidases containing a PA domain insert and associated with a PDZ domain; Region: M28_like_PA_PDZ_associated; cd05663 376686005246 metal binding site [ion binding]; metal-binding site 376686005247 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 376686005248 non-specific DNA binding site [nucleotide binding]; other site 376686005249 salt bridge; other site 376686005250 sequence-specific DNA binding site [nucleotide binding]; other site 376686005251 Mechanosensitive ion channel; Region: MS_channel; pfam00924 376686005252 SET domain; Region: SET; cl02566 376686005253 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 376686005254 Interdomain contacts; other site 376686005255 Cytokine receptor motif; other site 376686005256 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 376686005257 protein-splicing catalytic site; other site 376686005258 thioester formation/cholesterol transfer; other site 376686005259 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 376686005260 Transposase IS200 like; Region: Y1_Tnp; cl00848 376686005261 NlpC/P60 family; Region: NLPC_P60; cl11438 376686005262 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 376686005263 Catalytic site [active] 376686005264 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 376686005265 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 376686005266 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 376686005267 dimer interface [polypeptide binding]; other site 376686005268 phosphorylation site [posttranslational modification] 376686005269 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 376686005270 ATP binding site [chemical binding]; other site 376686005271 Mg2+ binding site [ion binding]; other site 376686005272 G-X-G motif; other site 376686005273 Response regulator receiver domain; Region: Response_reg; pfam00072 376686005274 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 376686005275 active site 376686005276 phosphorylation site [posttranslational modification] 376686005277 intermolecular recognition site; other site 376686005278 dimerization interface [polypeptide binding]; other site 376686005279 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 376686005280 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686005281 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686005282 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686005283 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 376686005284 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 376686005285 starch binding outer membrane protein SusD; Region: SusD; cl15876 376686005286 starch binding outer membrane protein SusD; Region: SusD; cl15876 376686005287 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 376686005288 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 376686005289 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 376686005290 beta-D-glucuronidase; Provisional; Region: PRK10150 376686005291 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 376686005292 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 376686005293 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 376686005294 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 376686005295 active site 376686005296 phosphorylation site [posttranslational modification] 376686005297 intermolecular recognition site; other site 376686005298 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686005299 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 376686005300 Histidine kinase; Region: HisKA_3; pfam07730 376686005301 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 376686005302 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 376686005303 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 376686005304 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686005305 NAD(P) binding site [chemical binding]; other site 376686005306 active site 376686005307 peptide synthase; Provisional; Region: PRK12316 376686005308 AMP-binding enzyme; Region: AMP-binding; cl15778 376686005309 Phosphopantetheine attachment site; Region: PP-binding; cl09936 376686005310 peptide synthase; Provisional; Region: PRK12467 376686005311 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 376686005312 AMP-binding enzyme; Region: AMP-binding; cl15778 376686005313 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 376686005314 AMP-binding enzyme; Region: AMP-binding; cl15778 376686005315 Phosphopantetheine attachment site; Region: PP-binding; cl09936 376686005316 peptide synthase; Provisional; Region: PRK12467 376686005317 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 376686005318 AMP-binding enzyme; Region: AMP-binding; cl15778 376686005319 Phosphopantetheine attachment site; Region: PP-binding; cl09936 376686005320 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 376686005321 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 376686005322 AMP-binding enzyme; Region: AMP-binding; cl15778 376686005323 acyl-CoA synthetase; Validated; Region: PRK08308 376686005324 Phosphopantetheine attachment site; Region: PP-binding; cl09936 376686005325 peptide synthase; Provisional; Region: PRK12467 376686005326 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 376686005327 AMP-binding enzyme; Region: AMP-binding; cl15778 376686005328 Phosphopantetheine attachment site; Region: PP-binding; cl09936 376686005329 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 376686005330 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 376686005331 classical (c) SDRs; Region: SDR_c; cd05233 376686005332 NAD(P) binding site [chemical binding]; other site 376686005333 active site 376686005334 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 376686005335 AMP-binding enzyme; Region: AMP-binding; cl15778 376686005336 Phosphopantetheine attachment site; Region: PP-binding; cl09936 376686005337 Condensation domain; Region: Condensation; pfam00668 376686005338 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 376686005339 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686005340 NAD(P) binding site [chemical binding]; other site 376686005341 active site 376686005342 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 376686005343 AMP-binding enzyme; Region: AMP-binding; cl15778 376686005344 Phosphopantetheine attachment site; Region: PP-binding; cl09936 376686005345 peptide synthase; Provisional; Region: PRK12467 376686005346 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 376686005347 AMP-binding enzyme; Region: AMP-binding; cl15778 376686005348 Phosphopantetheine attachment site; Region: PP-binding; cl09936 376686005349 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 376686005350 Condensation domain; Region: Condensation; pfam00668 376686005351 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 376686005352 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 376686005353 inhibitor-cofactor binding pocket; inhibition site 376686005354 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686005355 catalytic residue [active] 376686005356 peptide synthase; Provisional; Region: PRK12467 376686005357 AMP-binding enzyme; Region: AMP-binding; cl15778 376686005358 Phosphopantetheine attachment site; Region: PP-binding; cl09936 376686005359 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 376686005360 AMP-binding enzyme; Region: AMP-binding; cl15778 376686005361 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 376686005362 AMP-binding enzyme; Region: AMP-binding; cl15778 376686005363 Phosphopantetheine attachment site; Region: PP-binding; cl09936 376686005364 Predicted metal-dependent RNase, consists of a metallo-beta-lactamase domain and an RNA-binding KH domain [General function prediction only]; Region: COG1782 376686005365 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 376686005366 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 376686005367 peptide synthase; Provisional; Region: PRK12467 376686005368 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 376686005369 AMP-binding enzyme; Region: AMP-binding; cl15778 376686005370 Phosphopantetheine attachment site; Region: PP-binding; cl09936 376686005371 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 376686005372 Condensation domain; Region: Condensation; pfam00668 376686005373 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686005374 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 376686005375 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 376686005376 ABC-type siderophore export system, fused ATPase and permease components [Secondary metabolites biosynthesis, transport, and catabolism / Inorganic ion transport and metabolism]; Region: PvdE; COG4615 376686005377 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 376686005378 Walker A/P-loop; other site 376686005379 ATP binding site [chemical binding]; other site 376686005380 Q-loop/lid; other site 376686005381 ABC transporter signature motif; other site 376686005382 Walker B; other site 376686005383 D-loop; other site 376686005384 H-loop/switch region; other site 376686005385 peptide synthase; Provisional; Region: PRK12467 376686005386 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 376686005387 AMP-binding enzyme; Region: AMP-binding; cl15778 376686005388 Phosphopantetheine attachment site; Region: PP-binding; cl09936 376686005389 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 376686005390 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 376686005391 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 376686005392 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 376686005393 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 376686005394 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 376686005395 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 376686005396 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 376686005397 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 376686005398 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 376686005399 dimerization interface [polypeptide binding]; other site 376686005400 active site 376686005401 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 376686005402 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 376686005403 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 376686005404 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 376686005405 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 376686005406 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 376686005407 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686005408 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 376686005409 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 376686005410 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 376686005411 dimer interface [polypeptide binding]; other site 376686005412 catalytic triad [active] 376686005413 peroxidatic and resolving cysteines [active] 376686005414 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 376686005415 catalytic residues [active] 376686005416 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 376686005417 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 376686005418 dimer interface [polypeptide binding]; other site 376686005419 decamer (pentamer of dimers) interface [polypeptide binding]; other site 376686005420 catalytic triad [active] 376686005421 peroxidatic and resolving cysteines [active] 376686005422 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 376686005423 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 376686005424 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686005425 Coenzyme A binding pocket [chemical binding]; other site 376686005426 muropeptide transporter; Validated; Region: ampG; PRK11010 376686005427 AmpG-related permease; Region: 2A0125; TIGR00901 376686005428 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 376686005429 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 376686005430 LemA family; Region: LemA; cl00742 376686005431 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 376686005432 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 376686005433 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 376686005434 Mechanosensitive ion channel; Region: MS_channel; pfam00924 376686005435 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 376686005436 FAD binding domain; Region: FAD_binding_4; pfam01565 376686005437 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 376686005438 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 376686005439 amino acid transporter; Region: 2A0306; TIGR00909 376686005440 Spore germination protein; Region: Spore_permease; cl15802 376686005441 Spore germination protein; Region: Spore_permease; cl15802 376686005442 methionine gamma-lyase; Region: PLN02242 376686005443 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 376686005444 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686005445 catalytic residue [active] 376686005446 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 376686005447 Helix-turn-helix domains; Region: HTH; cl00088 376686005448 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 376686005449 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686005450 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 376686005451 Vps16, N-terminal region; Region: Vps16_N; pfam04841 376686005452 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 376686005453 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 376686005454 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 376686005455 Protein of unknown function (DUF2621); Region: DUF2621; pfam11084 376686005456 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07088 376686005457 chorismate binding enzyme; Region: Chorismate_bind; cl10555 376686005458 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 376686005459 Ligand Binding Site [chemical binding]; other site 376686005460 B3/4 domain; Region: B3_4; cl11458 376686005461 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 376686005462 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 376686005463 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 376686005464 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 376686005465 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686005466 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 376686005467 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 376686005468 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 376686005469 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686005470 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 376686005471 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 376686005472 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686005473 Walker A/P-loop; other site 376686005474 ATP binding site [chemical binding]; other site 376686005475 Q-loop/lid; other site 376686005476 ABC transporter signature motif; other site 376686005477 Walker B; other site 376686005478 D-loop; other site 376686005479 H-loop/switch region; other site 376686005480 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 376686005481 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 376686005482 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 376686005483 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 376686005484 putative hydrophobic ligand binding site [chemical binding]; other site 376686005485 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 376686005486 putative hydrophobic ligand binding site [chemical binding]; other site 376686005487 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 376686005488 dimerization interface [polypeptide binding]; other site 376686005489 putative DNA binding site [nucleotide binding]; other site 376686005490 putative Zn2+ binding site [ion binding]; other site 376686005491 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686005492 DinB superfamily; Region: DinB_2; pfam12867 376686005493 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 376686005494 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 376686005495 non-specific DNA binding site [nucleotide binding]; other site 376686005496 salt bridge; other site 376686005497 sequence-specific DNA binding site [nucleotide binding]; other site 376686005498 diaminopimelate decarboxylase; Region: lysA; TIGR01048 376686005499 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 376686005500 active site 376686005501 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 376686005502 substrate binding site [chemical binding]; other site 376686005503 catalytic residues [active] 376686005504 dimer interface [polypeptide binding]; other site 376686005505 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 376686005506 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686005507 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 376686005508 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 376686005509 active site 376686005510 dimer interface [polypeptide binding]; other site 376686005511 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 376686005512 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 376686005513 active site 376686005514 FMN binding site [chemical binding]; other site 376686005515 substrate binding site [chemical binding]; other site 376686005516 3Fe-4S cluster binding site [ion binding]; other site 376686005517 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 376686005518 domain interface; other site 376686005519 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 376686005520 ATP-grasp domain; Region: ATP-grasp_4; cl03087 376686005521 CoA-ligase; Region: Ligase_CoA; cl02894 376686005522 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 376686005523 Histidine kinase; Region: His_kinase; pfam06580 376686005524 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686005525 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 376686005526 active site 376686005527 phosphorylation site [posttranslational modification] 376686005528 intermolecular recognition site; other site 376686005529 dimerization interface [polypeptide binding]; other site 376686005530 LytTr DNA-binding domain; Region: LytTR; cl04498 376686005531 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 376686005532 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 376686005533 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 376686005534 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686005535 catalytic residue [active] 376686005536 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 376686005537 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 376686005538 active site 376686005539 excinuclease ABC subunit B; Provisional; Region: PRK05298 376686005540 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 376686005541 ATP binding site [chemical binding]; other site 376686005542 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 376686005543 nucleotide binding region [chemical binding]; other site 376686005544 ATP-binding site [chemical binding]; other site 376686005545 Ultra-violet resistance protein B; Region: UvrB; pfam12344 376686005546 UvrB/uvrC motif; Region: UVR; pfam02151 376686005547 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 376686005548 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 376686005549 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 376686005550 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 376686005551 Thiamine pyrophosphokinase; Region: TPK; cd07995 376686005552 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 376686005553 active site 376686005554 dimerization interface [polypeptide binding]; other site 376686005555 thiamine binding site [chemical binding]; other site 376686005556 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 376686005557 homotrimer interaction site [polypeptide binding]; other site 376686005558 putative active site [active] 376686005559 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 376686005560 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 376686005561 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 376686005562 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686005563 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686005564 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 376686005565 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 376686005566 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 376686005567 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 376686005568 Transposase IS200 like; Region: Y1_Tnp; cl00848 376686005569 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 376686005570 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 376686005571 Cupin domain; Region: Cupin_2; cl09118 376686005572 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 376686005573 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 376686005574 putative substrate translocation pore; other site 376686005575 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 376686005576 active site 376686005577 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 376686005578 Cytochrome c; Region: Cytochrom_C; cl11414 376686005579 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 376686005580 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 376686005581 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 376686005582 putative catalytic residue [active] 376686005583 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 376686005584 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 376686005585 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 376686005586 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 376686005587 dimer interface [polypeptide binding]; other site 376686005588 putative tRNA-binding site [nucleotide binding]; other site 376686005589 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 376686005590 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 376686005591 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 376686005592 substrate binding pocket [chemical binding]; other site 376686005593 Protein of unknown function (DUF3276); Region: DUF3276; cl15305 376686005594 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 376686005595 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 376686005596 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686005597 Walker A/P-loop; other site 376686005598 ATP binding site [chemical binding]; other site 376686005599 Q-loop/lid; other site 376686005600 ABC transporter signature motif; other site 376686005601 Walker B; other site 376686005602 D-loop; other site 376686005603 H-loop/switch region; other site 376686005604 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 376686005605 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 376686005606 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 376686005607 NAD binding site [chemical binding]; other site 376686005608 Phe binding site; other site 376686005609 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 376686005610 Preprotein translocase subunit; Region: YajC; cl00806 376686005611 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 376686005612 Protein of unknown function (DUF419); Region: DUF419; cl15265 376686005613 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 376686005614 peptidase T; Region: peptidase-T; TIGR01882 376686005615 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 376686005616 metal binding site [ion binding]; metal-binding site 376686005617 dimer interface [polypeptide binding]; other site 376686005618 gliding motility-associated lipoprotein GldJ; Region: GldJ_short; TIGR03530 376686005619 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 376686005620 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 376686005621 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 376686005622 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 376686005623 quinone interaction residues [chemical binding]; other site 376686005624 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 376686005625 active site 376686005626 catalytic residues [active] 376686005627 FMN binding site [chemical binding]; other site 376686005628 substrate binding site [chemical binding]; other site 376686005629 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 376686005630 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 376686005631 DNA binding residues [nucleotide binding] 376686005632 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 376686005633 active site 376686005634 catalytic residues [active] 376686005635 metal binding site [ion binding]; metal-binding site 376686005636 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 376686005637 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 376686005638 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 376686005639 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 376686005640 active site 376686005641 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 376686005642 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 376686005643 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 376686005644 dimer interface [polypeptide binding]; other site 376686005645 ADP-ribose binding site [chemical binding]; other site 376686005646 active site 376686005647 nudix motif; other site 376686005648 metal binding site [ion binding]; metal-binding site 376686005649 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 376686005650 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 376686005651 GDP-binding site [chemical binding]; other site 376686005652 ACT binding site; other site 376686005653 IMP binding site; other site 376686005654 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 376686005655 metal binding site 2 [ion binding]; metal-binding site 376686005656 putative DNA binding helix; other site 376686005657 metal binding site 1 [ion binding]; metal-binding site 376686005658 dimer interface [polypeptide binding]; other site 376686005659 structural Zn2+ binding site [ion binding]; other site 376686005660 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 376686005661 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 376686005662 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 376686005663 synthetase active site [active] 376686005664 NTP binding site [chemical binding]; other site 376686005665 metal binding site [ion binding]; metal-binding site 376686005666 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 376686005667 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 376686005668 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 376686005669 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 376686005670 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 376686005671 Sulfatase; Region: Sulfatase; cl10460 376686005672 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 376686005673 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 376686005674 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 376686005675 active site triad [active] 376686005676 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 376686005677 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 376686005678 MoxR-like ATPases [General function prediction only]; Region: COG0714 376686005679 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 376686005680 Walker A motif; other site 376686005681 ATP binding site [chemical binding]; other site 376686005682 Walker B motif; other site 376686005683 arginine finger; other site 376686005684 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 376686005685 Integral membrane protein DUF95; Region: DUF95; cl00572 376686005686 RDD family; Region: RDD; cl00746 376686005687 Predicted membrane protein [Function unknown]; Region: COG2860 376686005688 UPF0126 domain; Region: UPF0126; pfam03458 376686005689 UPF0126 domain; Region: UPF0126; pfam03458 376686005690 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 376686005691 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 376686005692 inhibitor-cofactor binding pocket; inhibition site 376686005693 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686005694 catalytic residue [active] 376686005695 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 376686005696 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 376686005697 substrate binding site; other site 376686005698 dimer interface; other site 376686005699 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 376686005700 classical (c) SDRs; Region: SDR_c; cd05233 376686005701 NAD(P) binding site [chemical binding]; other site 376686005702 active site 376686005703 colanic acid exporter; Provisional; Region: PRK10459 376686005704 MatE; Region: MatE; cl10513 376686005705 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 376686005706 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 376686005707 active site 376686005708 Cupin domain; Region: Cupin_2; cl09118 376686005709 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686005710 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 376686005711 putative ADP-binding pocket [chemical binding]; other site 376686005712 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 376686005713 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 376686005714 active site 376686005715 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 376686005716 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 376686005717 Walker A/P-loop; other site 376686005718 ATP binding site [chemical binding]; other site 376686005719 Q-loop/lid; other site 376686005720 ABC transporter signature motif; other site 376686005721 Walker B; other site 376686005722 D-loop; other site 376686005723 H-loop/switch region; other site 376686005724 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 376686005725 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 376686005726 binding surface 376686005727 TPR motif; other site 376686005728 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 376686005729 TPR motif; other site 376686005730 binding surface 376686005731 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 376686005732 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 376686005733 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 376686005734 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 376686005735 Predicted acetyltransferase [General function prediction only]; Region: COG3153 376686005736 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686005737 Coenzyme A binding pocket [chemical binding]; other site 376686005738 asparagine synthetase B; Provisional; Region: asnB; PRK09431 376686005739 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 376686005740 active site 376686005741 dimer interface [polypeptide binding]; other site 376686005742 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 376686005743 Ligand Binding Site [chemical binding]; other site 376686005744 Molecular Tunnel; other site 376686005745 asparagine synthetase B; Provisional; Region: asnB; PRK09431 376686005746 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 376686005747 dimer interface [polypeptide binding]; other site 376686005748 active site 376686005749 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 376686005750 Ligand Binding Site [chemical binding]; other site 376686005751 Molecular Tunnel; other site 376686005752 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 376686005753 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 376686005754 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 376686005755 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 376686005756 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 376686005757 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 376686005758 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 376686005759 Mg2+ binding site [ion binding]; other site 376686005760 G-X-G motif; other site 376686005761 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 376686005762 anchoring element; other site 376686005763 dimer interface [polypeptide binding]; other site 376686005764 ATP binding site [chemical binding]; other site 376686005765 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 376686005766 active site 376686005767 putative metal-binding site [ion binding]; other site 376686005768 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 376686005769 malate dehydrogenase; Reviewed; Region: PRK06223 376686005770 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 376686005771 NAD(P) binding site [chemical binding]; other site 376686005772 dimer interface [polypeptide binding]; other site 376686005773 tetramer (dimer of dimers) interface [polypeptide binding]; other site 376686005774 substrate binding site [chemical binding]; other site 376686005775 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 376686005776 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 376686005777 Protein export membrane protein; Region: SecD_SecF; cl14618 376686005778 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 376686005779 Protein export membrane protein; Region: SecD_SecF; cl14618 376686005780 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 376686005781 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 376686005782 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 376686005783 Peptidase family M23; Region: Peptidase_M23; pfam01551 376686005784 peptide chain release factor 2; Provisional; Region: PRK07342 376686005785 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 376686005786 Haemolytic domain; Region: Haemolytic; cl00506 376686005787 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 376686005788 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 376686005789 active site 376686005790 HIGH motif; other site 376686005791 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 376686005792 KMSKS motif; other site 376686005793 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 376686005794 tRNA binding surface [nucleotide binding]; other site 376686005795 anticodon binding site; other site 376686005796 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 376686005797 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 376686005798 GTP cyclohydrolase I; Provisional; Region: PLN03044 376686005799 active site 376686005800 aspartate aminotransferase; Provisional; Region: PRK07568 376686005801 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 376686005802 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686005803 homodimer interface [polypeptide binding]; other site 376686005804 catalytic residue [active] 376686005805 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 376686005806 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 376686005807 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686005808 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 376686005809 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 376686005810 TPR motif; other site 376686005811 binding surface 376686005812 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 376686005813 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686005814 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686005815 ligand binding site [chemical binding]; other site 376686005816 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 376686005817 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 376686005818 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 376686005819 active site 376686005820 HIGH motif; other site 376686005821 nucleotide binding site [chemical binding]; other site 376686005822 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 376686005823 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 376686005824 active site 376686005825 KMSKS motif; other site 376686005826 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 376686005827 tRNA binding surface [nucleotide binding]; other site 376686005828 anticodon binding site; other site 376686005829 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 376686005830 Amino acid permease; Region: AA_permease_2; pfam13520 376686005831 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 376686005832 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 376686005833 N-terminal plug; other site 376686005834 ligand-binding site [chemical binding]; other site 376686005835 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 376686005836 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686005837 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 376686005838 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 376686005839 N-terminal plug; other site 376686005840 ligand-binding site [chemical binding]; other site 376686005841 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 376686005842 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 376686005843 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 376686005844 Middle domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_M; cd10316 376686005845 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 376686005846 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 376686005847 N-terminal plug; other site 376686005848 ligand-binding site [chemical binding]; other site 376686005849 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 376686005850 putative substrate translocation pore; other site 376686005851 DNA topoisomerase III; Provisional; Region: PRK07726 376686005852 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 376686005853 active site 376686005854 putative interdomain interaction site [polypeptide binding]; other site 376686005855 putative metal-binding site [ion binding]; other site 376686005856 putative nucleotide binding site [chemical binding]; other site 376686005857 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 376686005858 domain I; other site 376686005859 DNA binding groove [nucleotide binding] 376686005860 phosphate binding site [ion binding]; other site 376686005861 domain II; other site 376686005862 domain III; other site 376686005863 nucleotide binding site [chemical binding]; other site 376686005864 catalytic site [active] 376686005865 domain IV; other site 376686005866 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 376686005867 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 376686005868 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 376686005869 Phenazine biosynthesis-like protein; Region: PhzC-PhzF; pfam02567 376686005870 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 376686005871 putative hydrophobic ligand binding site [chemical binding]; other site 376686005872 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 376686005873 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 376686005874 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 376686005875 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 376686005876 peptide chain release factor 1; Validated; Region: prfA; PRK00591 376686005877 RF-1 domain; Region: RF-1; cl02875 376686005878 RF-1 domain; Region: RF-1; cl02875 376686005879 YtxH-like protein; Region: YtxH; cl02079 376686005880 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 376686005881 CHASE3 domain; Region: CHASE3; cl05000 376686005882 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 376686005883 PAS fold; Region: PAS_3; pfam08447 376686005884 putative active site [active] 376686005885 heme pocket [chemical binding]; other site 376686005886 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 376686005887 dimer interface [polypeptide binding]; other site 376686005888 phosphorylation site [posttranslational modification] 376686005889 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 376686005890 ATP binding site [chemical binding]; other site 376686005891 Mg2+ binding site [ion binding]; other site 376686005892 G-X-G motif; other site 376686005893 Response regulator receiver domain; Region: Response_reg; pfam00072 376686005894 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 376686005895 active site 376686005896 phosphorylation site [posttranslational modification] 376686005897 intermolecular recognition site; other site 376686005898 dimerization interface [polypeptide binding]; other site 376686005899 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686005900 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686005901 CsbD-like; Region: CsbD; cl15799 376686005902 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 376686005903 Ferritin-like domain; Region: Ferritin; pfam00210 376686005904 dimerization interface [polypeptide binding]; other site 376686005905 DPS ferroxidase diiron center [ion binding]; other site 376686005906 ion pore; other site 376686005907 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686005908 ligand binding site [chemical binding]; other site 376686005909 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 376686005910 active site 376686005911 dimer interface [polypeptide binding]; other site 376686005912 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 376686005913 intersubunit interface [polypeptide binding]; other site 376686005914 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686005915 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 376686005916 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 376686005917 active site 376686005918 catalytic tetrad [active] 376686005919 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 376686005920 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 376686005921 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 376686005922 putative active site [active] 376686005923 putative substrate binding site [chemical binding]; other site 376686005924 putative cosubstrate binding site; other site 376686005925 catalytic site [active] 376686005926 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 376686005927 Cytochrome oxidase complex assembly protein 1; Region: Coa1; cl14904 376686005928 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 376686005929 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 376686005930 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 376686005931 B12 binding site [chemical binding]; other site 376686005932 cobalt ligand [ion binding]; other site 376686005933 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 376686005934 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 376686005935 Walker A; other site 376686005936 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 376686005937 Methylmalonyl-CoA mutase, N-terminal domain/subunit [Lipid metabolism]; Region: Sbm; COG1884 376686005938 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 376686005939 NTP binding site [chemical binding]; other site 376686005940 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 376686005941 putative active site [active] 376686005942 putative nucleic acid binding site [nucleotide binding]; other site 376686005943 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 376686005944 non-specific DNA binding site [nucleotide binding]; other site 376686005945 salt bridge; other site 376686005946 sequence-specific DNA binding site [nucleotide binding]; other site 376686005947 Domain of unknown function (DUF3244); Region: DUF3244; pfam11589 376686005948 Domain of unknown function (DUF3244); Region: DUF3244; pfam11589 376686005949 Cupin domain; Region: Cupin_2; cl09118 376686005950 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 376686005951 Putative esterase; Region: Esterase; pfam00756 376686005952 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 376686005953 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 376686005954 Integral membrane protein TerC family; Region: TerC; cl10468 376686005955 glutamine synthetase; Region: PLN02284 376686005956 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 376686005957 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 376686005958 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 376686005959 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 376686005960 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 376686005961 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 376686005962 Curli assembly protein CsgE; Region: CsgE; cl08115 376686005963 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 376686005964 TolB amino-terminal domain; Region: TolB_N; cl00639 376686005965 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686005966 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 376686005967 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 376686005968 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 376686005969 dimerization interface [polypeptide binding]; other site 376686005970 ATP binding site [chemical binding]; other site 376686005971 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 376686005972 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 376686005973 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 376686005974 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 376686005975 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 376686005976 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 376686005977 Zn binding site [ion binding]; other site 376686005978 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 376686005979 Protein of unknown function (DUF2805); Region: DUF2805; cl11923 376686005980 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 376686005981 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 376686005982 amphipathic channel; other site 376686005983 Asn-Pro-Ala signature motifs; other site 376686005984 Predicted membrane protein [Function unknown]; Region: COG4270 376686005985 EamA-like transporter family; Region: EamA; cl01037 376686005986 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 376686005987 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 376686005988 active site 376686005989 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 376686005990 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 376686005991 active site 376686005992 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 376686005993 peptidyl-prolyl isomerase, gliding motility-associated; Region: ppisom_GldI; TIGR03516 376686005994 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 376686005995 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 376686005996 DHH family; Region: DHH; pfam01368 376686005997 DHHA1 domain; Region: DHHA1; pfam02272 376686005998 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 376686005999 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 376686006000 putative Cl- selectivity filter; other site 376686006001 putative pore gating glutamate residue; other site 376686006002 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 376686006003 homotrimer interaction site [polypeptide binding]; other site 376686006004 putative active site [active] 376686006005 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 376686006006 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 376686006007 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 376686006008 HSP70 interaction site [polypeptide binding]; other site 376686006009 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 376686006010 dimer interface [polypeptide binding]; other site 376686006011 GMP synthase; Reviewed; Region: guaA; PRK00074 376686006012 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 376686006013 AMP/PPi binding site [chemical binding]; other site 376686006014 candidate oxyanion hole; other site 376686006015 catalytic triad [active] 376686006016 potential glutamine specificity residues [chemical binding]; other site 376686006017 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 376686006018 ATP Binding subdomain [chemical binding]; other site 376686006019 Ligand Binding sites [chemical binding]; other site 376686006020 Dimerization subdomain; other site 376686006021 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 376686006022 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 376686006023 putative peptidoglycan binding site; other site 376686006024 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 376686006025 putative peptidoglycan binding site; other site 376686006026 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 376686006027 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 376686006028 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 376686006029 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 376686006030 putative peptidoglycan binding site; other site 376686006031 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 376686006032 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 376686006033 ligand binding site [chemical binding]; other site 376686006034 OsmC-like protein; Region: OsmC; cl00767 376686006035 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 376686006036 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 376686006037 active site 376686006038 trimer interface [polypeptide binding]; other site 376686006039 allosteric site; other site 376686006040 active site lid [active] 376686006041 hexamer (dimer of trimers) interface [polypeptide binding]; other site 376686006042 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 376686006043 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 376686006044 CTP synthetase; Validated; Region: pyrG; PRK05380 376686006045 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 376686006046 Catalytic site [active] 376686006047 active site 376686006048 UTP binding site [chemical binding]; other site 376686006049 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 376686006050 active site 376686006051 putative oxyanion hole; other site 376686006052 catalytic triad [active] 376686006053 membrane protein insertase; Provisional; Region: PRK01318 376686006054 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 376686006055 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 376686006056 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 376686006057 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 376686006058 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 376686006059 Peptidase S8 family domain, uncharacterized subfamily 9; Region: Peptidases_S8_9; cd07493 376686006060 active site 376686006061 catalytic triad [active] 376686006062 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686006063 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 376686006064 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 376686006065 FMN binding site [chemical binding]; other site 376686006066 substrate binding site [chemical binding]; other site 376686006067 putative catalytic residue [active] 376686006068 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 376686006069 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 376686006070 putative active site [active] 376686006071 putative CoA binding site [chemical binding]; other site 376686006072 nudix motif; other site 376686006073 metal binding site [ion binding]; metal-binding site 376686006074 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 376686006075 putative acyl-acceptor binding pocket; other site 376686006076 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 376686006077 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686006078 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 376686006079 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 376686006080 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 376686006081 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 376686006082 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 376686006083 metal binding site [ion binding]; metal-binding site 376686006084 dimer interface [polypeptide binding]; other site 376686006085 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686006086 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 376686006087 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 376686006088 ATP binding site [chemical binding]; other site 376686006089 Mg++ binding site [ion binding]; other site 376686006090 motif III; other site 376686006091 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 376686006092 nucleotide binding region [chemical binding]; other site 376686006093 ATP-binding site [chemical binding]; other site 376686006094 DbpA RNA binding domain; Region: DbpA; pfam03880 376686006095 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 376686006096 active site 376686006097 dimerization interface [polypeptide binding]; other site 376686006098 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 376686006099 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 376686006100 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686006101 Walker A/P-loop; other site 376686006102 ATP binding site [chemical binding]; other site 376686006103 Q-loop/lid; other site 376686006104 ABC transporter signature motif; other site 376686006105 Walker B; other site 376686006106 D-loop; other site 376686006107 H-loop/switch region; other site 376686006108 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 376686006109 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 376686006110 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 376686006111 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 376686006112 active site 376686006113 FMN binding site [chemical binding]; other site 376686006114 substrate binding site [chemical binding]; other site 376686006115 3Fe-4S cluster binding site [ion binding]; other site 376686006116 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 376686006117 putative metal binding site [ion binding]; other site 376686006118 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 376686006119 Rrf2 family protein; Region: rrf2_super; TIGR00738 376686006120 Helix-turn-helix domains; Region: HTH; cl00088 376686006121 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 376686006122 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 376686006123 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 376686006124 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 376686006125 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 376686006126 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 376686006127 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 376686006128 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 376686006129 Cu(I) binding site [ion binding]; other site 376686006130 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 376686006131 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 376686006132 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 376686006133 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 376686006134 Cytochrome c; Region: Cytochrom_C; cl11414 376686006135 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 376686006136 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 376686006137 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686006138 catalytic residue [active] 376686006139 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 376686006140 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 376686006141 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 376686006142 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 376686006143 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 376686006144 MatE; Region: MatE; cl10513 376686006145 Mechanosensitive ion channel; Region: MS_channel; pfam00924 376686006146 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 376686006147 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 376686006148 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 376686006149 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 376686006150 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 376686006151 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 376686006152 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 376686006153 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686006154 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686006155 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 376686006156 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 376686006157 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686006158 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 376686006159 active site 376686006160 catalytic residues [active] 376686006161 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 376686006162 active site 376686006163 catalytic residues [active] 376686006164 RNA polymerase sigma factor; Provisional; Region: PRK12513 376686006165 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686006166 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 376686006167 DNA binding residues [nucleotide binding] 376686006168 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 376686006169 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 376686006170 endonuclease III; Region: ENDO3c; smart00478 376686006171 minor groove reading motif; other site 376686006172 helix-hairpin-helix signature motif; other site 376686006173 substrate binding pocket [chemical binding]; other site 376686006174 active site 376686006175 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 376686006176 catalytic triad [active] 376686006177 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 376686006178 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 376686006179 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 376686006180 dihydroorotase; Validated; Region: pyrC; PRK09357 376686006181 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 376686006182 active site 376686006183 Aerotolerance regulator N-terminal; Region: BatA; cl06567 376686006184 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 376686006185 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 376686006186 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 376686006187 DEAD-like helicases superfamily; Region: DEXDc; smart00487 376686006188 ATP binding site [chemical binding]; other site 376686006189 Mg++ binding site [ion binding]; other site 376686006190 motif III; other site 376686006191 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 376686006192 nucleotide binding region [chemical binding]; other site 376686006193 ATP-binding site [chemical binding]; other site 376686006194 Protein of unknown function (DUF2400); Region: DUF2400; cl09884 376686006195 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686006196 AAA domain; Region: AAA_21; pfam13304 376686006197 Walker A/P-loop; other site 376686006198 ATP binding site [chemical binding]; other site 376686006199 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 376686006200 Q-loop/lid; other site 376686006201 ABC transporter signature motif; other site 376686006202 Walker B; other site 376686006203 D-loop; other site 376686006204 H-loop/switch region; other site 376686006205 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686006206 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 376686006207 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686006208 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 376686006209 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 376686006210 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686006211 catalytic residue [active] 376686006212 Acyl-CoA reductase (LuxC); Region: LuxC; pfam05893 376686006213 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 376686006214 4Fe-4S binding domain; Region: Fer4; cl02805 376686006215 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686006216 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686006217 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686006218 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 376686006219 N-terminal plug; other site 376686006220 ligand-binding site [chemical binding]; other site 376686006221 GTP-binding protein YchF; Reviewed; Region: PRK09601 376686006222 YchF GTPase; Region: YchF; cd01900 376686006223 G1 box; other site 376686006224 GTP/Mg2+ binding site [chemical binding]; other site 376686006225 Switch I region; other site 376686006226 G2 box; other site 376686006227 Switch II region; other site 376686006228 G3 box; other site 376686006229 G4 box; other site 376686006230 G5 box; other site 376686006231 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 376686006232 Protein of unknown function (DUF2459); Region: DUF2459; cl09819 376686006233 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 376686006234 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 376686006235 Uncharacterized protein involved in cytokinesis, contains TGc (transglutaminase/protease-like) domain [Cell division and chromosome partitioning]; Region: CYK3; COG5279 376686006236 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 376686006237 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 376686006238 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 376686006239 active site 376686006240 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 376686006241 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 376686006242 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 376686006243 anchoring element; other site 376686006244 dimer interface [polypeptide binding]; other site 376686006245 ATP binding site [chemical binding]; other site 376686006246 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 376686006247 active site 376686006248 putative metal-binding site [ion binding]; other site 376686006249 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 376686006250 DNA topoisomerase IV subunit A; Provisional; Region: PRK12758 376686006251 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; cl00148 376686006252 CAP-like domain; other site 376686006253 active site 376686006254 primary dimer interface [polypeptide binding]; other site 376686006255 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686006256 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 376686006257 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 376686006258 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 376686006259 active site 376686006260 substrate binding site [chemical binding]; other site 376686006261 catalytic site [active] 376686006262 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 376686006263 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 376686006264 ligand binding site [chemical binding]; other site 376686006265 flexible hinge region; other site 376686006266 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 376686006267 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 376686006268 metal binding triad; other site 376686006269 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 376686006270 DinB superfamily; Region: DinB_2; pfam12867 376686006271 Helix-turn-helix domains; Region: HTH; cl00088 376686006272 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 376686006273 putative catalytic residues [active] 376686006274 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 376686006275 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 376686006276 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 376686006277 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 376686006278 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 376686006279 putative active site [active] 376686006280 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 376686006281 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686006282 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686006283 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 376686006284 ZIP Zinc transporter; Region: Zip; pfam02535 376686006285 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 376686006286 S-adenosylmethionine binding site [chemical binding]; other site 376686006287 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 376686006288 THUMP domain; Region: THUMP; cl12076 376686006289 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686006290 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 376686006291 aspartate racemase; Region: asp_race; TIGR00035 376686006292 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 376686006293 TRAM domain; Region: TRAM; cl01282 376686006294 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 376686006295 S-adenosylmethionine binding site [chemical binding]; other site 376686006296 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686006297 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 376686006298 ATP binding site [chemical binding]; other site 376686006299 Mg2+ binding site [ion binding]; other site 376686006300 G-X-G motif; other site 376686006301 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 376686006302 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 376686006303 active site 376686006304 catalytic tetrad [active] 376686006305 cysteine synthase B; Region: cysM; TIGR01138 376686006306 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 376686006307 dimer interface [polypeptide binding]; other site 376686006308 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686006309 catalytic residue [active] 376686006310 serine O-acetyltransferase; Region: cysE; TIGR01172 376686006311 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 376686006312 trimer interface [polypeptide binding]; other site 376686006313 active site 376686006314 substrate binding site [chemical binding]; other site 376686006315 CoA binding site [chemical binding]; other site 376686006316 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 376686006317 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 376686006318 MutS2 family protein; Region: mutS2; TIGR01069 376686006319 Smr domain; Region: Smr; cl02619 376686006320 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 376686006321 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 376686006322 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686006323 catalytic residue [active] 376686006324 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 376686006325 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686006326 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 376686006327 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 376686006328 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 376686006329 metal-binding site 376686006330 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686006331 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 376686006332 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 376686006333 putative metal binding site; other site 376686006334 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 376686006335 putative active site [active] 376686006336 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 376686006337 putative metal binding site; other site 376686006338 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 376686006339 putative active site [active] 376686006340 putative metal binding site [ion binding]; other site 376686006341 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 376686006342 putative metal binding site; other site 376686006343 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 376686006344 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 376686006345 trimer interface [polypeptide binding]; other site 376686006346 active site 376686006347 substrate binding site [chemical binding]; other site 376686006348 CoA binding site [chemical binding]; other site 376686006349 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 376686006350 PAS fold; Region: PAS_3; pfam08447 376686006351 putative active site [active] 376686006352 heme pocket [chemical binding]; other site 376686006353 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 376686006354 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686006355 Predicted dehydrogenase [General function prediction only]; Region: COG0579 376686006356 Isochorismatase family; Region: Isochorismatase; pfam00857 376686006357 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 376686006358 catalytic triad [active] 376686006359 conserved cis-peptide bond; other site 376686006360 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 376686006361 Predicted membrane protein [Function unknown]; Region: COG1289 376686006362 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 376686006363 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 376686006364 active site 376686006365 catalytic residues [active] 376686006366 metal binding site [ion binding]; metal-binding site 376686006367 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 376686006368 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 376686006369 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 376686006370 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686006371 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 376686006372 ligand binding site [chemical binding]; other site 376686006373 Helix-turn-helix domains; Region: HTH; cl00088 376686006374 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 376686006375 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 376686006376 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 376686006377 metal-binding site [ion binding] 376686006378 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 376686006379 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 376686006380 putative bifunctional cbb3-type cytochrome c oxidase subunit I/II; Provisional; Region: PRK14485 376686006381 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 376686006382 Low-spin heme binding site [chemical binding]; other site 376686006383 Putative water exit pathway; other site 376686006384 Binuclear center (active site) [active] 376686006385 Putative proton exit pathway; other site 376686006386 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 376686006387 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 376686006388 Cytochrome c; Region: Cytochrom_C; cl11414 376686006389 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 376686006390 4Fe-4S binding domain; Region: Fer4_5; pfam12801 376686006391 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 376686006392 FixH; Region: FixH; cl01254 376686006393 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 376686006394 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 376686006395 HemN C-terminal domain; Region: HemN_C; pfam06969 376686006396 DoxX; Region: DoxX; cl00976 376686006397 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 376686006398 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 376686006399 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 376686006400 Helix-turn-helix domains; Region: HTH; cl00088 376686006401 Domain of unknown function (DUF3817); Region: DUF3817; cl14844 376686006402 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 376686006403 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 376686006404 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 376686006405 trimer interface [polypeptide binding]; other site 376686006406 active site 376686006407 UDP-GlcNAc binding site [chemical binding]; other site 376686006408 lipid binding site [chemical binding]; lipid-binding site 376686006409 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 376686006410 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 376686006411 RF-1 domain; Region: RF-1; cl02875 376686006412 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 376686006413 RF-1 domain; Region: RF-1; cl02875 376686006414 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 376686006415 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 376686006416 tetramer interface [polypeptide binding]; other site 376686006417 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686006418 catalytic residue [active] 376686006419 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 376686006420 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 376686006421 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 376686006422 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 376686006423 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 376686006424 dimer interface [polypeptide binding]; other site 376686006425 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686006426 catalytic residue [active] 376686006427 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 376686006428 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 376686006429 Transcriptional regulator; Region: Transcrip_reg; cl00361 376686006430 carboxy-terminal protease; Provisional; Region: PRK11186 376686006431 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 376686006432 protein binding site [polypeptide binding]; other site 376686006433 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 376686006434 Catalytic dyad [active] 376686006435 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 376686006436 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 376686006437 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 376686006438 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 376686006439 putative substrate binding site [chemical binding]; other site 376686006440 putative ATP binding site [chemical binding]; other site 376686006441 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 376686006442 Pectate lyase; Region: Pec_lyase_C; cl01593 376686006443 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 376686006444 ligand binding site [chemical binding]; other site 376686006445 flexible hinge region; other site 376686006446 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 376686006447 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686006448 Coenzyme A binding pocket [chemical binding]; other site 376686006449 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 376686006450 non-specific DNA binding site [nucleotide binding]; other site 376686006451 salt bridge; other site 376686006452 sequence-specific DNA binding site [nucleotide binding]; other site 376686006453 heat shock protein 90; Provisional; Region: PTZ00130 376686006454 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 376686006455 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 376686006456 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 376686006457 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686006458 catalytic residue [active] 376686006459 homoserine kinase; Provisional; Region: PRK01212 376686006460 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 376686006461 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 376686006462 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 376686006463 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 376686006464 putative catalytic residues [active] 376686006465 nucleotide binding site [chemical binding]; other site 376686006466 aspartate binding site [chemical binding]; other site 376686006467 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 376686006468 dimer interface [polypeptide binding]; other site 376686006469 putative threonine allosteric regulatory site; other site 376686006470 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 376686006471 putative threonine allosteric regulatory site; other site 376686006472 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686006473 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 376686006474 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 376686006475 active sites [active] 376686006476 tetramer interface [polypeptide binding]; other site 376686006477 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 376686006478 Phosphate transporter family; Region: PHO4; cl00396 376686006479 Phosphate transporter family; Region: PHO4; cl00396 376686006480 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 376686006481 Protein of unknown function (DUF421); Region: DUF421; cl00990 376686006482 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 376686006483 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 376686006484 ATP-grasp domain; Region: ATP-grasp_4; cl03087 376686006485 Clp protease ATP binding subunit; Region: clpC; CHL00095 376686006486 Clp amino terminal domain; Region: Clp_N; pfam02861 376686006487 Clp amino terminal domain; Region: Clp_N; pfam02861 376686006488 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 376686006489 Walker A motif; other site 376686006490 ATP binding site [chemical binding]; other site 376686006491 Walker B motif; other site 376686006492 arginine finger; other site 376686006493 UvrB/uvrC motif; Region: UVR; pfam02151 376686006494 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 376686006495 Walker A motif; other site 376686006496 ATP binding site [chemical binding]; other site 376686006497 Walker B motif; other site 376686006498 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 376686006499 DNA gyrase subunit A; Validated; Region: PRK05560 376686006500 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 376686006501 CAP-like domain; other site 376686006502 active site 376686006503 primary dimer interface [polypeptide binding]; other site 376686006504 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 376686006505 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 376686006506 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 376686006507 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 376686006508 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 376686006509 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 376686006510 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 376686006511 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 376686006512 binding surface 376686006513 TPR motif; other site 376686006514 TPR repeat; Region: TPR_11; pfam13414 376686006515 OsmC-like protein; Region: OsmC; cl00767 376686006516 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 376686006517 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 376686006518 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 376686006519 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 376686006520 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 376686006521 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 376686006522 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 376686006523 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 376686006524 shikimate binding site; other site 376686006525 NAD(P) binding site [chemical binding]; other site 376686006526 TPR repeat; Region: TPR_11; pfam13414 376686006527 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 376686006528 binding surface 376686006529 TPR motif; other site 376686006530 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 376686006531 binding surface 376686006532 TPR repeat; Region: TPR_11; pfam13414 376686006533 TPR motif; other site 376686006534 TPR repeat; Region: TPR_11; pfam13414 376686006535 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 376686006536 binding surface 376686006537 TPR motif; other site 376686006538 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 376686006539 binding surface 376686006540 TPR motif; other site 376686006541 acetylornithine aminotransferase; Provisional; Region: PRK02627 376686006542 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 376686006543 inhibitor-cofactor binding pocket; inhibition site 376686006544 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686006545 catalytic residue [active] 376686006546 OstA-like protein; Region: OstA_2; pfam13100 376686006547 OstA-like protein; Region: OstA; cl00844 376686006548 OstA-like protein; Region: OstA; cl00844 376686006549 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 376686006550 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 376686006551 active site 376686006552 catalytic site [active] 376686006553 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 376686006554 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 376686006555 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 376686006556 Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a...; Region: ACBP; cl00221 376686006557 acyl-CoA binding pocket [chemical binding]; other site 376686006558 CoA binding site [chemical binding]; other site 376686006559 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 376686006560 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 376686006561 FtsH Extracellular; Region: FtsH_ext; pfam06480 376686006562 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 376686006563 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 376686006564 Walker A motif; other site 376686006565 ATP binding site [chemical binding]; other site 376686006566 Walker B motif; other site 376686006567 arginine finger; other site 376686006568 Peptidase family M41; Region: Peptidase_M41; pfam01434 376686006569 Oligomerisation domain; Region: Oligomerisation; cl00519 376686006570 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 376686006571 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 376686006572 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 376686006573 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 376686006574 active site 376686006575 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 376686006576 active site 376686006577 Ap6A binding site [chemical binding]; other site 376686006578 nudix motif; other site 376686006579 metal binding site [ion binding]; metal-binding site 376686006580 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 376686006581 non-specific DNA binding site [nucleotide binding]; other site 376686006582 salt bridge; other site 376686006583 sequence-specific DNA binding site [nucleotide binding]; other site 376686006584 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 376686006585 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 376686006586 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 376686006587 putative active site [active] 376686006588 Zn binding site [ion binding]; other site 376686006589 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686006590 ATP binding site [chemical binding]; other site 376686006591 putative Mg++ binding site [ion binding]; other site 376686006592 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 376686006593 nucleotide binding region [chemical binding]; other site 376686006594 ATP-binding site [chemical binding]; other site 376686006595 DbpA RNA binding domain; Region: DbpA; pfam03880 376686006596 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; smart00782 376686006597 PhnA protein; Region: PhnA; pfam03831 376686006598 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 376686006599 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 376686006600 active site 376686006601 (T/H)XGH motif; other site 376686006602 Protein of unknown function (DUF421); Region: DUF421; cl00990 376686006603 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 376686006604 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 376686006605 ATP-grasp domain; Region: ATP-grasp_4; cl03087 376686006606 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 376686006607 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 376686006608 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 376686006609 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 376686006610 RNA binding surface [nucleotide binding]; other site 376686006611 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 376686006612 active site 376686006613 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686006614 ABC transporter signature motif; other site 376686006615 Walker B; other site 376686006616 D-loop; other site 376686006617 ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]; Region: ModF; COG1119 376686006618 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686006619 Walker A/P-loop; other site 376686006620 ATP binding site [chemical binding]; other site 376686006621 Q-loop/lid; other site 376686006622 ABC transporter signature motif; other site 376686006623 Walker B; other site 376686006624 D-loop; other site 376686006625 H-loop/switch region; other site 376686006626 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 376686006627 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 376686006628 active site residue [active] 376686006629 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 376686006630 active site residue [active] 376686006631 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 376686006632 Protein of unknown function (DUF1398); Region: DUF1398; cl11576 376686006633 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 376686006634 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 376686006635 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 376686006636 Mechanosensitive ion channel; Region: MS_channel; pfam00924 376686006637 Pectate lyase; Region: Pec_lyase_C; cl01593 376686006638 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 376686006639 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 376686006640 Interdomain contacts; other site 376686006641 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 376686006642 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686006643 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 376686006644 active site 376686006645 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 376686006646 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 376686006647 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 376686006648 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 376686006649 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 376686006650 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 376686006651 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 376686006652 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 376686006653 Int/Topo IB signature motif; other site 376686006654 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 376686006655 Helix-turn-helix domains; Region: HTH; cl00088 376686006656 putative transposase OrfB; Reviewed; Region: PHA02517 376686006657 HTH-like domain; Region: HTH_21; pfam13276 376686006658 Integrase core domain; Region: rve; cl01316 376686006659 Integrase core domain; Region: rve_3; cl15866 376686006660 HTH-like domain; Region: HTH_21; pfam13276 376686006661 Integrase core domain; Region: rve; cl01316 376686006662 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 376686006663 DNA-binding site [nucleotide binding]; DNA binding site 376686006664 RNA-binding motif; other site 376686006665 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 376686006666 active site 376686006667 catalytic triad [active] 376686006668 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 376686006669 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 376686006670 Walker A motif; other site 376686006671 ATP binding site [chemical binding]; other site 376686006672 Walker B motif; other site 376686006673 arginine finger; other site 376686006674 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 376686006675 oxidoreductase; Provisional; Region: PRK06128 376686006676 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686006677 NAD(P) binding site [chemical binding]; other site 376686006678 active site 376686006679 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 376686006680 FAD dependent oxidoreductase; Region: DAO; pfam01266 376686006681 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686006682 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 376686006683 [2Fe-2S] cluster binding site [ion binding]; other site 376686006684 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 376686006685 dimerization interface [polypeptide binding]; other site 376686006686 metal binding site [ion binding]; metal-binding site 376686006687 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 376686006688 Y-family of DNA polymerases; Region: PolY; cl12025 376686006689 active site 376686006690 Response regulator receiver domain; Region: Response_reg; pfam00072 376686006691 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 376686006692 active site 376686006693 phosphorylation site [posttranslational modification] 376686006694 intermolecular recognition site; other site 376686006695 dimerization interface [polypeptide binding]; other site 376686006696 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 376686006697 classical (c) SDRs; Region: SDR_c; cd05233 376686006698 NAD(P) binding site [chemical binding]; other site 376686006699 active site 376686006700 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 376686006701 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 376686006702 NAD binding site [chemical binding]; other site 376686006703 catalytic Zn binding site [ion binding]; other site 376686006704 structural Zn binding site [ion binding]; other site 376686006705 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 376686006706 dimerization interface [polypeptide binding]; other site 376686006707 metal binding site [ion binding]; metal-binding site 376686006708 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 376686006709 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 376686006710 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 376686006711 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 376686006712 putative heme binding pocket [chemical binding]; other site 376686006713 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: MDN1; COG5271 376686006714 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686006715 RHS Repeat; Region: RHS_repeat; cl11982 376686006716 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 376686006717 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 376686006718 DNA binding site [nucleotide binding] 376686006719 Int/Topo IB signature motif; other site 376686006720 active site 376686006721 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686006722 G1 box; other site 376686006723 GTP/Mg2+ binding site [chemical binding]; other site 376686006724 G2 box; other site 376686006725 G3 box; other site 376686006726 Switch II region; other site 376686006727 G4 box; other site 376686006728 G5 box; other site 376686006729 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 376686006730 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 376686006731 DNA binding site [nucleotide binding] 376686006732 Int/Topo IB signature motif; other site 376686006733 active site 376686006734 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 376686006735 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 376686006736 DNA binding site [nucleotide binding] 376686006737 Int/Topo IB signature motif; other site 376686006738 active site 376686006739 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 376686006740 non-specific DNA binding site [nucleotide binding]; other site 376686006741 salt bridge; other site 376686006742 sequence-specific DNA binding site [nucleotide binding]; other site 376686006743 Domain of unknown function (DUF4329); Region: DUF4329; pfam14220 376686006744 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 376686006745 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 376686006746 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 376686006747 Phage Tail Collar Domain; Region: Collar; pfam07484 376686006748 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 376686006749 Phage Tail Collar Domain; Region: Collar; pfam07484 376686006750 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 376686006751 Phage Tail Collar Domain; Region: Collar; pfam07484 376686006752 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 376686006753 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686006754 Coenzyme A binding pocket [chemical binding]; other site 376686006755 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686006756 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686006757 Bacterial SH3 domain; Region: SH3_3; cl02551 376686006758 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 376686006759 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 376686006760 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 376686006761 active site 376686006762 motif I; other site 376686006763 motif II; other site 376686006764 Protein of unknown function DUF262; Region: DUF262; cl14890 376686006765 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 376686006766 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 376686006767 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686006768 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 376686006769 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 376686006770 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686006771 Walker A/P-loop; other site 376686006772 ATP binding site [chemical binding]; other site 376686006773 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686006774 Q-loop/lid; other site 376686006775 ABC transporter signature motif; other site 376686006776 Walker B; other site 376686006777 D-loop; other site 376686006778 H-loop/switch region; other site 376686006779 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 376686006780 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 376686006781 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 376686006782 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 376686006783 Int/Topo IB signature motif; other site 376686006784 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 376686006785 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 376686006786 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 376686006787 trmE is a tRNA modification GTPase; Region: trmE; cd04164 376686006788 G1 box; other site 376686006789 GTP/Mg2+ binding site [chemical binding]; other site 376686006790 Switch I region; other site 376686006791 G2 box; other site 376686006792 Switch II region; other site 376686006793 G3 box; other site 376686006794 G4 box; other site 376686006795 G5 box; other site 376686006796 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 376686006797 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 376686006798 Ligand Binding Site [chemical binding]; other site 376686006799 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 376686006800 Ligand Binding Site [chemical binding]; other site 376686006801 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 376686006802 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686006803 Walker A/P-loop; other site 376686006804 ATP binding site [chemical binding]; other site 376686006805 Q-loop/lid; other site 376686006806 ABC transporter signature motif; other site 376686006807 Walker B; other site 376686006808 D-loop; other site 376686006809 H-loop/switch region; other site 376686006810 Transcriptional regulators [Transcription]; Region: PurR; COG1609 376686006811 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 376686006812 DNA binding site [nucleotide binding] 376686006813 domain linker motif; other site 376686006814 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 376686006815 ligand binding site [chemical binding]; other site 376686006816 dimerization interface [polypeptide binding]; other site 376686006817 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686006818 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686006819 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 376686006820 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 376686006821 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 376686006822 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686006823 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 376686006824 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 376686006825 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 376686006826 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 376686006827 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 376686006828 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 376686006829 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 376686006830 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 376686006831 Protein of unknown function (DUF1237); Region: DUF1237; cl15402 376686006832 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 376686006833 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 376686006834 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 376686006835 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 376686006836 catalytic residues [active] 376686006837 DNA polymerase III subunit beta; Validated; Region: PRK05643 376686006838 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 376686006839 putative DNA binding surface [nucleotide binding]; other site 376686006840 dimer interface [polypeptide binding]; other site 376686006841 beta-clamp/clamp loader binding surface; other site 376686006842 beta-clamp/translesion DNA polymerase binding surface; other site 376686006843 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 376686006844 ABC-2 type transporter; Region: ABC2_membrane; cl11417 376686006845 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 376686006846 Uncharacterized conserved protein [Function unknown]; Region: COG1912 376686006847 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 376686006848 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 376686006849 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686006850 Protein of unknown function (DUF419); Region: DUF419; cl15265 376686006851 putative hydrolase; Provisional; Region: PRK10976 376686006852 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 376686006853 active site 376686006854 motif I; other site 376686006855 motif II; other site 376686006856 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 376686006857 ATP binding site [chemical binding]; other site 376686006858 active site 376686006859 substrate binding site [chemical binding]; other site 376686006860 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; cl09200 376686006861 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 376686006862 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 376686006863 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 376686006864 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 376686006865 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 376686006866 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 376686006867 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 376686006868 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 376686006869 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 376686006870 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 376686006871 dimer interface [polypeptide binding]; other site 376686006872 phosphorylation site [posttranslational modification] 376686006873 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 376686006874 ATP binding site [chemical binding]; other site 376686006875 Mg2+ binding site [ion binding]; other site 376686006876 G-X-G motif; other site 376686006877 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 376686006878 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 376686006879 active site 376686006880 phosphorylation site [posttranslational modification] 376686006881 intermolecular recognition site; other site 376686006882 dimerization interface [polypeptide binding]; other site 376686006883 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 376686006884 DNA binding site [nucleotide binding] 376686006885 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 376686006886 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 376686006887 oligomer interface [polypeptide binding]; other site 376686006888 active site 376686006889 metal binding site [ion binding]; metal-binding site 376686006890 Domain of unknown function (DUF4294); Region: DUF4294; pfam14127 376686006891 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 376686006892 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 376686006893 endonuclease III; Region: ENDO3c; smart00478 376686006894 minor groove reading motif; other site 376686006895 helix-hairpin-helix signature motif; other site 376686006896 substrate binding pocket [chemical binding]; other site 376686006897 active site 376686006898 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 376686006899 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 376686006900 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 376686006901 glycogen synthase; Provisional; Region: glgA; PRK00654 376686006902 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 376686006903 ADP-binding pocket [chemical binding]; other site 376686006904 homodimer interface [polypeptide binding]; other site 376686006905 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK02862 376686006906 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 376686006907 ligand binding site; other site 376686006908 oligomer interface; other site 376686006909 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 376686006910 dimer interface [polypeptide binding]; other site 376686006911 N-terminal domain interface [polypeptide binding]; other site 376686006912 sulfate 1 binding site; other site 376686006913 glycogen branching enzyme; Provisional; Region: PRK12313 376686006914 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 376686006915 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 376686006916 active site 376686006917 catalytic site [active] 376686006918 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 376686006919 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 376686006920 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 376686006921 trimer interface [polypeptide binding]; other site 376686006922 active site 376686006923 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 376686006924 catalytic site [active] 376686006925 Peptidase family M48; Region: Peptidase_M48; cl12018 376686006926 Vacuole effluxer Atg22 like; Region: ATG22; pfam11700 376686006927 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 376686006928 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 376686006929 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 376686006930 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 376686006931 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 376686006932 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686006933 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 376686006934 DNA binding residues [nucleotide binding] 376686006935 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 376686006936 Found in ATP-dependent protease La (LON); Region: LON; smart00464 376686006937 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 376686006938 Walker A motif; other site 376686006939 ATP binding site [chemical binding]; other site 376686006940 Walker B motif; other site 376686006941 arginine finger; other site 376686006942 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 376686006943 cytidylate kinase; Provisional; Region: cmk; PRK00023 376686006944 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 376686006945 CMP-binding site; other site 376686006946 The sites determining sugar specificity; other site 376686006947 nucleoside transporter; Region: 2A0110; TIGR00889 376686006948 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 376686006949 putative substrate translocation pore; other site 376686006950 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 376686006951 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 376686006952 RNA binding site [nucleotide binding]; other site 376686006953 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 376686006954 RNA binding site [nucleotide binding]; other site 376686006955 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 376686006956 RNA binding site [nucleotide binding]; other site 376686006957 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 376686006958 RNA binding site [nucleotide binding]; other site 376686006959 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 376686006960 RNA binding site [nucleotide binding]; other site 376686006961 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 376686006962 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 376686006963 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 376686006964 Fasciclin domain; Region: Fasciclin; cl02663 376686006965 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 376686006966 EamA-like transporter family; Region: EamA; cl01037 376686006967 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 376686006968 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 376686006969 TPR repeat; Region: TPR_11; pfam13414 376686006970 binding surface 376686006971 TPR motif; other site 376686006972 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 376686006973 Helix-turn-helix domains; Region: HTH; cl00088 376686006974 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 376686006975 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 376686006976 Helix-turn-helix domains; Region: HTH; cl00088 376686006977 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 376686006978 Major Facilitator Superfamily; Region: MFS_1; pfam07690 376686006979 putative substrate translocation pore; other site 376686006980 Protein of unknown function (DUF1684); Region: DUF1684; cl01327 376686006981 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 376686006982 active site 376686006983 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 376686006984 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 376686006985 putative ATP binding site [chemical binding]; other site 376686006986 putative substrate interface [chemical binding]; other site 376686006987 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 376686006988 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 376686006989 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 376686006990 motif II; other site 376686006991 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 376686006992 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 376686006993 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686006994 Coenzyme A binding pocket [chemical binding]; other site 376686006995 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 376686006996 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 376686006997 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 376686006998 dimer interface [polypeptide binding]; other site 376686006999 tetramer interface [polypeptide binding]; other site 376686007000 PYR/PP interface [polypeptide binding]; other site 376686007001 TPP binding site [chemical binding]; other site 376686007002 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 376686007003 TPP-binding site; other site 376686007004 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 376686007005 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 376686007006 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 376686007007 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 376686007008 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 376686007009 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 376686007010 substrate binding site [chemical binding]; other site 376686007011 oxyanion hole (OAH) forming residues; other site 376686007012 trimer interface [polypeptide binding]; other site 376686007013 UbiA prenyltransferase family; Region: UbiA; cl00337 376686007014 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 376686007015 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 376686007016 binding surface 376686007017 TPR motif; other site 376686007018 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 376686007019 o-succinylbenzoate synthase; Region: menC_gamma/gm+; TIGR01927 376686007020 active site 376686007021 Uncharacterized conserved protein [Function unknown]; Region: COG3743 376686007022 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 376686007023 ligand binding site [chemical binding]; other site 376686007024 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686007025 ligand binding site [chemical binding]; other site 376686007026 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 376686007027 putative active site [active] 376686007028 putative metal binding residues [ion binding]; other site 376686007029 signature motif; other site 376686007030 putative dimer interface [polypeptide binding]; other site 376686007031 putative phosphate binding site [ion binding]; other site 376686007032 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 376686007033 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686007034 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 376686007035 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 376686007036 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 376686007037 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 376686007038 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 376686007039 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686007040 catalytic residue [active] 376686007041 Amino acid permease; Region: AA_permease_2; pfam13520 376686007042 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 376686007043 hypothetical protein; Provisional; Region: PRK06148 376686007044 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 376686007045 S-adenosylmethionine binding site [chemical binding]; other site 376686007046 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 376686007047 putative acyl-acceptor binding pocket; other site 376686007048 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 376686007049 non-specific DNA binding site [nucleotide binding]; other site 376686007050 salt bridge; other site 376686007051 sequence-specific DNA binding site [nucleotide binding]; other site 376686007052 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_2; cd06239 376686007053 putative active site [active] 376686007054 Zn binding site [ion binding]; other site 376686007055 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 376686007056 Helix-turn-helix domains; Region: HTH; cl00088 376686007057 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 376686007058 DinB superfamily; Region: DinB_2; pfam12867 376686007059 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 376686007060 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 376686007061 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 376686007062 ATP binding site [chemical binding]; other site 376686007063 putative Mg++ binding site [ion binding]; other site 376686007064 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 376686007065 nucleotide binding region [chemical binding]; other site 376686007066 ATP-binding site [chemical binding]; other site 376686007067 RQC domain; Region: RQC; cl09632 376686007068 HRDC domain; Region: HRDC; cl02578 376686007069 Deoxyhypusine synthase; Region: DS; cl00826 376686007070 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 376686007071 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 376686007072 dimer interface [polypeptide binding]; other site 376686007073 active site 376686007074 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 376686007075 catalytic residues [active] 376686007076 substrate binding site [chemical binding]; other site 376686007077 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 376686007078 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 376686007079 active site 376686007080 dimer interface [polypeptide binding]; other site 376686007081 metal binding site [ion binding]; metal-binding site 376686007082 O-Antigen ligase; Region: Wzy_C; cl04850 376686007083 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 376686007084 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 376686007085 TPR motif; other site 376686007086 binding surface 376686007087 Proline dehydrogenase; Region: Pro_dh; cl03282 376686007088 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 376686007089 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 376686007090 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 376686007091 Walker A/P-loop; other site 376686007092 ATP binding site [chemical binding]; other site 376686007093 Q-loop/lid; other site 376686007094 ABC transporter signature motif; other site 376686007095 Walker B; other site 376686007096 D-loop; other site 376686007097 H-loop/switch region; other site 376686007098 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 376686007099 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686007100 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_24; cd09012 376686007101 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 376686007102 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 376686007103 non-specific DNA binding site [nucleotide binding]; other site 376686007104 salt bridge; other site 376686007105 sequence-specific DNA binding site [nucleotide binding]; other site 376686007106 Tic20-like protein; Region: Tic20; pfam09685 376686007107 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686007108 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 376686007109 active site 376686007110 metal binding site [ion binding]; metal-binding site 376686007111 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 376686007112 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686007113 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 376686007114 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686007115 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686007116 hypothetical protein; Provisional; Region: PRK06753 376686007117 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686007118 DoxX; Region: DoxX; cl00976 376686007119 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 376686007120 hydrophobic ligand binding site; other site 376686007121 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 376686007122 dimerization interface [polypeptide binding]; other site 376686007123 putative DNA binding site [nucleotide binding]; other site 376686007124 putative Zn2+ binding site [ion binding]; other site 376686007125 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; cl02047 376686007126 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 376686007127 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 376686007128 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 376686007129 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 376686007130 NMT1-like family; Region: NMT1_2; cl15260 376686007131 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 376686007132 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686007133 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 376686007134 active site 376686007135 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 376686007136 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 376686007137 The SUI1/eIF1 (eukaryotic initiation factor 1) fold is found in eukaryotes, archaea, and some bacteria and is thought to play an important role in accurate initiator codon recognition during translation initiation. This fold, which includes two...; Region: SUI1_eIF1; cl00229 376686007138 Predicted RNA interaction site [nucleotide binding]; other site 376686007139 putative binding site; other site 376686007140 Mutations affecting start-site selection; other site 376686007141 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 376686007142 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 376686007143 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 376686007144 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 376686007145 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 376686007146 tetramer interface [polypeptide binding]; other site 376686007147 TPP-binding site [chemical binding]; other site 376686007148 heterodimer interface [polypeptide binding]; other site 376686007149 phosphorylation loop region [posttranslational modification] 376686007150 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 376686007151 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 376686007152 alpha subunit interface [polypeptide binding]; other site 376686007153 TPP binding site [chemical binding]; other site 376686007154 heterodimer interface [polypeptide binding]; other site 376686007155 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 376686007156 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 376686007157 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686007158 NAD(P) binding site [chemical binding]; other site 376686007159 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686007160 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 376686007161 ligand binding site [chemical binding]; other site 376686007162 flexible hinge region; other site 376686007163 Mechanosensitive ion channel; Region: MS_channel; pfam00924 376686007164 Domain of unknown function (DUF3817); Region: DUF3817; cl14844 376686007165 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 376686007166 ATP binding site [chemical binding]; other site 376686007167 putative Mg++ binding site [ion binding]; other site 376686007168 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 376686007169 nucleotide binding region [chemical binding]; other site 376686007170 ATP-binding site [chemical binding]; other site 376686007171 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 376686007172 DEAD-like helicases superfamily; Region: DEXDc; smart00487 376686007173 ATP binding site [chemical binding]; other site 376686007174 Mg++ binding site [ion binding]; other site 376686007175 motif III; other site 376686007176 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 376686007177 nucleotide binding region [chemical binding]; other site 376686007178 ATP-binding site [chemical binding]; other site 376686007179 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 376686007180 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686007181 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 376686007182 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 376686007183 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 376686007184 putative substrate translocation pore; other site 376686007185 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 376686007186 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 376686007187 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 376686007188 active site 376686007189 substrate binding site [chemical binding]; other site 376686007190 catalytic site [active] 376686007191 acetyl-CoA synthetase; Provisional; Region: PRK00174 376686007192 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 376686007193 AMP-binding enzyme; Region: AMP-binding; cl15778 376686007194 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 376686007195 ketol-acid reductoisomerase; Validated; Region: PRK05225 376686007196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686007197 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 376686007198 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 376686007199 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 376686007200 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 376686007201 putative valine binding site [chemical binding]; other site 376686007202 dimer interface [polypeptide binding]; other site 376686007203 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 376686007204 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 376686007205 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 376686007206 PYR/PP interface [polypeptide binding]; other site 376686007207 dimer interface [polypeptide binding]; other site 376686007208 TPP binding site [chemical binding]; other site 376686007209 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 376686007210 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 376686007211 TPP-binding site [chemical binding]; other site 376686007212 dimer interface [polypeptide binding]; other site 376686007213 Dehydratase family; Region: ILVD_EDD; cl00340 376686007214 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 376686007215 tartrate dehydrogenase; Provisional; Region: PRK08194 376686007216 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 376686007217 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 376686007218 active site 376686007219 catalytic residues [active] 376686007220 metal binding site [ion binding]; metal-binding site 376686007221 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 376686007222 Zn binding site [ion binding]; other site 376686007223 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 376686007224 Zn binding site [ion binding]; other site 376686007225 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_3; cd09620 376686007226 putative ligand binding site [chemical binding]; other site 376686007227 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 376686007228 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 376686007229 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 376686007230 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 376686007231 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 376686007232 substrate binding site [chemical binding]; other site 376686007233 glutamase interaction surface [polypeptide binding]; other site 376686007234 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 376686007235 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 376686007236 catalytic residues [active] 376686007237 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 376686007238 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 376686007239 putative active site [active] 376686007240 oxyanion strand; other site 376686007241 catalytic triad [active] 376686007242 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 376686007243 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 376686007244 active site 376686007245 motif I; other site 376686007246 motif II; other site 376686007247 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 376686007248 putative active site pocket [active] 376686007249 4-fold oligomerization interface [polypeptide binding]; other site 376686007250 metal binding residues [ion binding]; metal-binding site 376686007251 3-fold/trimer interface [polypeptide binding]; other site 376686007252 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 376686007253 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 376686007254 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686007255 homodimer interface [polypeptide binding]; other site 376686007256 catalytic residue [active] 376686007257 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 376686007258 histidinol dehydrogenase; Region: hisD; TIGR00069 376686007259 NAD binding site [chemical binding]; other site 376686007260 dimerization interface [polypeptide binding]; other site 376686007261 product binding site; other site 376686007262 substrate binding site [chemical binding]; other site 376686007263 zinc binding site [ion binding]; other site 376686007264 catalytic residues [active] 376686007265 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 376686007266 ATP phosphoribosyltransferase; Region: HisG; cl15266 376686007267 HisG, C-terminal domain; Region: HisG_C; cl06867 376686007268 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 376686007269 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 376686007270 dimer interface [polypeptide binding]; other site 376686007271 phosphorylation site [posttranslational modification] 376686007272 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 376686007273 ATP binding site [chemical binding]; other site 376686007274 Mg2+ binding site [ion binding]; other site 376686007275 G-X-G motif; other site 376686007276 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 376686007277 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 376686007278 active site 376686007279 phosphorylation site [posttranslational modification] 376686007280 intermolecular recognition site; other site 376686007281 dimerization interface [polypeptide binding]; other site 376686007282 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 376686007283 DNA binding site [nucleotide binding] 376686007284 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 376686007285 Sulfatase; Region: Sulfatase; cl10460 376686007286 S1/P1 Nuclease; Region: S1-P1_nuclease; pfam02265 376686007287 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 376686007288 Transcriptional regulator [Transcription]; Region: LysR; COG0583 376686007289 Helix-turn-helix domains; Region: HTH; cl00088 376686007290 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 376686007291 putative dimerization interface [polypeptide binding]; other site 376686007292 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 376686007293 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 376686007294 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 376686007295 NAD(P) binding site [chemical binding]; other site 376686007296 homotetramer interface [polypeptide binding]; other site 376686007297 homodimer interface [polypeptide binding]; other site 376686007298 active site 376686007299 Domain of unknown function (DUF4302); Region: DUF4302; pfam14135 376686007300 starch binding outer membrane protein SusD; Region: SusD; cl15876 376686007301 Secretin and TonB N terminus short domain; Region: STN; cl06624 376686007302 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686007303 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686007304 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 376686007305 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 376686007306 FecR protein; Region: FecR; pfam04773 376686007307 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 376686007308 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 376686007309 DNA binding residues [nucleotide binding] 376686007310 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 376686007311 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686007312 CoA-ligase; Region: Ligase_CoA; cl02894 376686007313 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 376686007314 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 376686007315 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 376686007316 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 376686007317 trimer interface [polypeptide binding]; other site 376686007318 active site 376686007319 UDP-GlcNAc binding site [chemical binding]; other site 376686007320 lipid binding site [chemical binding]; lipid-binding site 376686007321 elongation factor P; Validated; Region: PRK00529 376686007322 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 376686007323 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 376686007324 RNA binding site [nucleotide binding]; other site 376686007325 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 376686007326 RNA binding site [nucleotide binding]; other site 376686007327 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 376686007328 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 376686007329 active site 376686007330 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 376686007331 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 376686007332 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 376686007333 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 376686007334 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 376686007335 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 376686007336 trimer interface [polypeptide binding]; other site 376686007337 active site 376686007338 UDP-GlcNAc binding site [chemical binding]; other site 376686007339 lipid binding site [chemical binding]; lipid-binding site 376686007340 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 376686007341 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 376686007342 Response regulator receiver domain; Region: Response_reg; pfam00072 376686007343 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 376686007344 active site 376686007345 phosphorylation site [posttranslational modification] 376686007346 intermolecular recognition site; other site 376686007347 dimerization interface [polypeptide binding]; other site 376686007348 PglZ domain; Region: PglZ; pfam08665 376686007349 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 376686007350 Domain of unknown function (DUF4262); Region: DUF4262; pfam14081 376686007351 Domain of unknown function (DUF4262); Region: DUF4262; pfam14081 376686007352 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 376686007353 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 376686007354 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686007355 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 376686007356 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 376686007357 ligand binding site [chemical binding]; other site 376686007358 active site 376686007359 UGI interface [polypeptide binding]; other site 376686007360 catalytic site [active] 376686007361 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 376686007362 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686007363 Walker A/P-loop; other site 376686007364 ATP binding site [chemical binding]; other site 376686007365 Q-loop/lid; other site 376686007366 ABC transporter signature motif; other site 376686007367 Walker B; other site 376686007368 D-loop; other site 376686007369 H-loop/switch region; other site 376686007370 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 376686007371 GIY-YIG motif/motif A; other site 376686007372 putative active site [active] 376686007373 putative metal binding site [ion binding]; other site 376686007374 Protein of unknown function, DUF393; Region: DUF393; cl01136 376686007375 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 376686007376 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686007377 Walker A/P-loop; other site 376686007378 ATP binding site [chemical binding]; other site 376686007379 Q-loop/lid; other site 376686007380 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 376686007381 ABC transporter; Region: ABC_tran_2; pfam12848 376686007382 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 376686007383 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 376686007384 DNA polymerase III, delta subunit; Region: holA; TIGR01128 376686007385 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 376686007386 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 376686007387 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 376686007388 Probable Catalytic site; other site 376686007389 metal-binding site 376686007390 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686007391 ligand binding site [chemical binding]; other site 376686007392 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 376686007393 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 376686007394 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686007395 Family description; Region: UvrD_C_2; cl15862 376686007396 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 376686007397 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 376686007398 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 376686007399 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 376686007400 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 376686007401 Zn binding site [ion binding]; other site 376686007402 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_IV; cd01994 376686007403 Ligand Binding Site [chemical binding]; other site 376686007404 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686007405 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 376686007406 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 376686007407 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 376686007408 generic binding surface II; other site 376686007409 ssDNA binding site; other site 376686007410 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 376686007411 ATP binding site [chemical binding]; other site 376686007412 putative Mg++ binding site [ion binding]; other site 376686007413 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 376686007414 nucleotide binding region [chemical binding]; other site 376686007415 ATP-binding site [chemical binding]; other site 376686007416 PAS domain; Region: PAS_9; pfam13426 376686007417 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 376686007418 putative active site [active] 376686007419 heme pocket [chemical binding]; other site 376686007420 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 376686007421 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686007422 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 376686007423 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 376686007424 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 376686007425 Protein export membrane protein; Region: SecD_SecF; cl14618 376686007426 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 376686007427 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 376686007428 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 376686007429 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686007430 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686007431 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 376686007432 catalytic residues [active] 376686007433 dimer interface [polypeptide binding]; other site 376686007434 putative RNA polymerase sigma E protein; Provisional; Region: PRK13919 376686007435 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686007436 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 376686007437 DNA binding residues [nucleotide binding] 376686007438 Anti-sigma-K factor rskA; Region: RskA; pfam10099 376686007439 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 376686007440 putative DNA binding site [nucleotide binding]; other site 376686007441 putative Zn2+ binding site [ion binding]; other site 376686007442 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 376686007443 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 376686007444 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 376686007445 ResB-like family; Region: ResB; pfam05140 376686007446 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 376686007447 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 376686007448 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686007449 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 376686007450 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 376686007451 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 376686007452 active site 376686007453 motif I; other site 376686007454 motif II; other site 376686007455 UbiA prenyltransferase family; Region: UbiA; cl00337 376686007456 Maf-like protein; Region: Maf; pfam02545 376686007457 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 376686007458 active site 376686007459 dimer interface [polypeptide binding]; other site 376686007460 Mechanosensitive ion channel; Region: MS_channel; pfam00924 376686007461 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 376686007462 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 376686007463 PQQ-like domain; Region: PQQ_2; pfam13360 376686007464 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 376686007465 Sodium:solute symporter family; Region: SSF; cl00456 376686007466 Sodium:solute symporter family; Region: SSF; cl00456 376686007467 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 376686007468 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 376686007469 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 376686007470 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 376686007471 Helix-turn-helix domains; Region: HTH; cl00088 376686007472 Protein of unknown function (DUF779); Region: DUF779; cl01432 376686007473 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 376686007474 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 376686007475 NAD(P) binding site [chemical binding]; other site 376686007476 catalytic residues [active] 376686007477 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 376686007478 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 376686007479 putative tRNA-binding site [nucleotide binding]; other site 376686007480 B3/4 domain; Region: B3_4; cl11458 376686007481 tRNA synthetase B5 domain; Region: B5; cl08394 376686007482 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 376686007483 dimer interface [polypeptide binding]; other site 376686007484 motif 1; other site 376686007485 motif 3; other site 376686007486 motif 2; other site 376686007487 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 376686007488 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 376686007489 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 376686007490 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 376686007491 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 376686007492 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 376686007493 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 376686007494 active site 376686007495 phosphorylation site [posttranslational modification] 376686007496 intermolecular recognition site; other site 376686007497 dimerization interface [polypeptide binding]; other site 376686007498 Helix-turn-helix domains; Region: HTH; cl00088 376686007499 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 376686007500 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 376686007501 active site 376686007502 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 376686007503 catalytic residues [active] 376686007504 catalytic nucleophile [active] 376686007505 Recombinase; Region: Recombinase; pfam07508 376686007506 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 376686007507 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 376686007508 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cd00138 376686007509 putative active site [active] 376686007510 catalytic site [active] 376686007511 Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar1_2; cd09128 376686007512 PLD-like domain; Region: PLDc_2; pfam13091 376686007513 putative active site [active] 376686007514 putative catalytic site [active] 376686007515 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 376686007516 dimer interface [polypeptide binding]; other site 376686007517 ssDNA binding site [nucleotide binding]; other site 376686007518 tetramer (dimer of dimers) interface [polypeptide binding]; other site 376686007519 Domain of unknown function (DUF932); Region: DUF932; cl12129 376686007520 PRTRC system protein E; Region: PRTRC_E; TIGR03741 376686007521 Prokaryotic Ubiquitin; Region: Prok_Ub; cl14020 376686007522 Prokaryotic E2 family D; Region: Prok-E2_D; cl14019 376686007523 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 376686007524 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686007525 ATP binding site [chemical binding]; other site 376686007526 substrate interface [chemical binding]; other site 376686007527 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 376686007528 dimerization interface [polypeptide binding]; other site 376686007529 putative DNA binding site [nucleotide binding]; other site 376686007530 putative Zn2+ binding site [ion binding]; other site 376686007531 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 376686007532 S-adenosylmethionine binding site [chemical binding]; other site 376686007533 Low molecular weight phosphatase family; Region: LMWPc; cl00105 376686007534 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 376686007535 Membrane transport protein; Region: Mem_trans; cl09117 376686007536 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 376686007537 Cupin domain; Region: Cupin_2; cl09118 376686007538 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686007539 PAP2_like_4 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_4; cd03395 376686007540 active site 376686007541 DoxX; Region: DoxX; cl00976 376686007542 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 376686007543 Chromate transporter; Region: Chromate_transp; pfam02417 376686007544 Chromate transporter; Region: Chromate_transp; pfam02417 376686007545 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 376686007546 Transposase; Region: DEDD_Tnp_IS110; pfam01548 376686007547 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 376686007548 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 376686007549 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 376686007550 Bacteroides conjugative transposon TraM protein; Region: Bac_Flav_CT_M; TIGR03779 376686007551 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 376686007552 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 376686007553 Bacteroides conjugative transposon TraJ protein; Region: Bac_Flav_CT_J; TIGR03782 376686007554 Domain of unknown function (DUF4141); Region: DUF4141; pfam13605 376686007555 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 376686007556 Domain of unknown function, B. Theta Gene description (DUF3875); Region: DUF3875; pfam12991 376686007557 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686007558 Walker A/P-loop; other site 376686007559 ATP binding site [chemical binding]; other site 376686007560 Domain of unknown function (DUF4133); Region: DUF4133; pfam13571 376686007561 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 376686007562 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 376686007563 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 376686007564 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686007565 catalytic residue [active] 376686007566 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686007567 AAA domain; Region: AAA_21; pfam13304 376686007568 Walker A/P-loop; other site 376686007569 ATP binding site [chemical binding]; other site 376686007570 AAA domain; Region: AAA_21; pfam13304 376686007571 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 376686007572 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 376686007573 Active Sites [active] 376686007574 Protein of unknown function (DUF4007); Region: DUF4007; pfam13182 376686007575 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 376686007576 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 376686007577 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 376686007578 P-loop; other site 376686007579 Magnesium ion binding site [ion binding]; other site 376686007580 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 376686007581 YWFCY protein; Region: YWFCY; pfam14293 376686007582 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686007583 AAA-like domain; Region: AAA_10; pfam12846 376686007584 Walker A motif; other site 376686007585 ATP binding site [chemical binding]; other site 376686007586 Walker B motif; other site 376686007587 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 376686007588 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 376686007589 DNA topoisomerase III; Provisional; Region: PRK07726 376686007590 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 376686007591 active site 376686007592 putative interdomain interaction site [polypeptide binding]; other site 376686007593 putative metal-binding site [ion binding]; other site 376686007594 putative nucleotide binding site [chemical binding]; other site 376686007595 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 376686007596 domain I; other site 376686007597 DNA binding groove [nucleotide binding] 376686007598 phosphate binding site [ion binding]; other site 376686007599 domain II; other site 376686007600 domain III; other site 376686007601 nucleotide binding site [chemical binding]; other site 376686007602 catalytic site [active] 376686007603 domain IV; other site 376686007604 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 376686007605 Protein of unknown function (DUF4099); Region: DUF4099; pfam13351 376686007606 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 376686007607 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 376686007608 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 376686007609 RteC protein; Region: RteC; pfam09357 376686007610 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686007611 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686007612 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686007613 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 376686007614 PLD-like domain; Region: PLDc_2; pfam13091 376686007615 putative homodimer interface [polypeptide binding]; other site 376686007616 putative active site [active] 376686007617 catalytic site [active] 376686007618 Peptidase U49; Region: Peptidase_U49; cl15458 376686007619 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 376686007620 non-specific DNA binding site [nucleotide binding]; other site 376686007621 salt bridge; other site 376686007622 sequence-specific DNA binding site [nucleotide binding]; other site 376686007623 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686007624 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686007625 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 376686007626 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686007627 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 376686007628 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 376686007629 DoxX; Region: DoxX; cl00976 376686007630 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 376686007631 Walker A motif; other site 376686007632 ATP binding site [chemical binding]; other site 376686007633 Walker B motif; other site 376686007634 arginine finger; other site 376686007635 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 376686007636 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 376686007637 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 376686007638 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 376686007639 active site 376686007640 lipid A phosphoethanolamine transferase; Reviewed; Region: PRK09598 376686007641 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 376686007642 Sulfatase; Region: Sulfatase; cl10460 376686007643 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 376686007644 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 376686007645 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 376686007646 active site 376686007647 phosphorylation site [posttranslational modification] 376686007648 intermolecular recognition site; other site 376686007649 dimerization interface [polypeptide binding]; other site 376686007650 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 376686007651 DNA binding site [nucleotide binding] 376686007652 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686007653 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 376686007654 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 376686007655 Sulfatase; Region: Sulfatase; cl10460 376686007656 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 376686007657 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 376686007658 hypothetical protein; Provisional; Region: PRK06153 376686007659 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 376686007660 ATP binding site [chemical binding]; other site 376686007661 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 376686007662 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 376686007663 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 376686007664 active site 376686007665 catalytic triad [active] 376686007666 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 376686007667 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 376686007668 Walker A motif; other site 376686007669 ATP binding site [chemical binding]; other site 376686007670 Walker B motif; other site 376686007671 arginine finger; other site 376686007672 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 376686007673 dimer interface [polypeptide binding]; other site 376686007674 ssDNA binding site [nucleotide binding]; other site 376686007675 tetramer (dimer of dimers) interface [polypeptide binding]; other site 376686007676 PcfK-like protein; Region: PcfK; pfam14058 376686007677 PcfJ-like protein; Region: PcfJ; pfam14284 376686007678 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 376686007679 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 376686007680 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 376686007681 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 376686007682 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 376686007683 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 376686007684 Haem-binding domain; Region: Haem_bd; pfam14376 376686007685 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 376686007686 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 376686007687 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 376686007688 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 376686007689 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686007690 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 376686007691 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 376686007692 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 376686007693 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 376686007694 metal-binding site [ion binding] 376686007695 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 376686007696 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 376686007697 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 376686007698 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 376686007699 TPR repeat; Region: TPR_11; pfam13414 376686007700 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 376686007701 binding surface 376686007702 TPR motif; other site 376686007703 Domain of unknown function (DUF305); Region: DUF305; cl15795 376686007704 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 376686007705 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 376686007706 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 376686007707 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 376686007708 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 376686007709 dimerization interface [polypeptide binding]; other site 376686007710 putative DNA binding site [nucleotide binding]; other site 376686007711 putative Zn2+ binding site [ion binding]; other site 376686007712 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 376686007713 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686007714 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 376686007715 Coenzyme A binding pocket [chemical binding]; other site 376686007716 Low molecular weight phosphatase family; Region: LMWPc; cl00105 376686007717 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 376686007718 Membrane transport protein; Region: Mem_trans; cl09117 376686007719 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 376686007720 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 376686007721 active site 376686007722 metal binding site [ion binding]; metal-binding site 376686007723 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 376686007724 RNA polymerase sigma factor SigZ; Provisional; Region: PRK09637 376686007725 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686007726 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 376686007727 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 376686007728 dimerization interface [polypeptide binding]; other site 376686007729 putative DNA binding site [nucleotide binding]; other site 376686007730 putative Zn2+ binding site [ion binding]; other site 376686007731 MerT mercuric transport protein; Region: MerT; cl03578 376686007732 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 376686007733 metal-binding site [ion binding] 376686007734 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686007735 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686007736 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 376686007737 N-terminal plug; other site 376686007738 ligand-binding site [chemical binding]; other site 376686007739 Cation efflux family; Region: Cation_efflux; cl00316 376686007740 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686007741 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686007742 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 376686007743 putative substrate translocation pore; other site 376686007744 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 376686007745 Helix-turn-helix domains; Region: HTH; cl00088 376686007746 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 376686007747 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 376686007748 substrate binding site [chemical binding]; other site 376686007749 oxyanion hole (OAH) forming residues; other site 376686007750 trimer interface [polypeptide binding]; other site 376686007751 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 376686007752 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 376686007753 putative NAD(P) binding site [chemical binding]; other site 376686007754 Methyltransferase domain; Region: Methyltransf_31; pfam13847 376686007755 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 376686007756 S-adenosylmethionine binding site [chemical binding]; other site 376686007757 Helix-turn-helix domains; Region: HTH; cl00088 376686007758 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 376686007759 Helix-turn-helix domains; Region: HTH; cl00088 376686007760 Epoxide hydrolase N terminus; Region: EHN; pfam06441 376686007761 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 376686007762 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 376686007763 non-specific DNA binding site [nucleotide binding]; other site 376686007764 salt bridge; other site 376686007765 sequence-specific DNA binding site [nucleotide binding]; other site 376686007766 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 376686007767 ligand binding site [chemical binding]; other site 376686007768 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686007769 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686007770 active site 376686007771 Glycosyl hydrolase family 43, includes mostly 1,4-beta-xylanases; Region: GH43_bXyl; cd09004 376686007772 putative substrate binding site [chemical binding]; other site 376686007773 active site 376686007774 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 376686007775 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 376686007776 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 376686007777 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 376686007778 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 376686007779 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 376686007780 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 376686007781 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 376686007782 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 376686007783 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 376686007784 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 376686007785 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 376686007786 putative transporter; Provisional; Region: PRK10484 376686007787 Sodium:solute symporter family; Region: SSF; cl00456 376686007788 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 376686007789 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 376686007790 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 376686007791 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 376686007792 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 376686007793 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 376686007794 Family of unknown function (DUF706); Region: DUF706; pfam05153 376686007795 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 376686007796 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 376686007797 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 376686007798 dimer interface [polypeptide binding]; other site 376686007799 phosphorylation site [posttranslational modification] 376686007800 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 376686007801 ATP binding site [chemical binding]; other site 376686007802 Mg2+ binding site [ion binding]; other site 376686007803 G-X-G motif; other site 376686007804 Response regulator receiver domain; Region: Response_reg; pfam00072 376686007805 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 376686007806 active site 376686007807 phosphorylation site [posttranslational modification] 376686007808 intermolecular recognition site; other site 376686007809 dimerization interface [polypeptide binding]; other site 376686007810 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686007811 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686007812 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 376686007813 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 376686007814 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 376686007815 Dehydratase family; Region: ILVD_EDD; cl00340 376686007816 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 376686007817 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 376686007818 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 376686007819 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686007820 starch binding outer membrane protein SusD; Region: SusD; cl15876 376686007821 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686007822 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686007823 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 376686007824 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 376686007825 Alpha-N-acetylglucosaminidase (NAGLU) N-terminal domain; Region: NAGLU_N; pfam12971 376686007826 Alpha-N-acetylglucosaminidase (NAGLU) tim-barrel domain; Region: NAGLU; pfam05089 376686007827 Alpha-N-acetylglucosaminidase (NAGLU) C-terminal domain; Region: NAGLU_C; pfam12972 376686007828 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686007829 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 376686007830 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686007831 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 376686007832 DinB superfamily; Region: DinB_2; pfam12867 376686007833 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 376686007834 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 376686007835 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 376686007836 dimer interface [polypeptide binding]; other site 376686007837 phosphorylation site [posttranslational modification] 376686007838 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 376686007839 ATP binding site [chemical binding]; other site 376686007840 Mg2+ binding site [ion binding]; other site 376686007841 G-X-G motif; other site 376686007842 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 376686007843 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 376686007844 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 376686007845 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 376686007846 ATP binding site [chemical binding]; other site 376686007847 Mg2+ binding site [ion binding]; other site 376686007848 G-X-G motif; other site 376686007849 Sulphate Transporter and Anti-Sigma factor antagonist domain of the 'stressosome' complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 376686007850 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 376686007851 Sulphate Transporter and Anti-Sigma factor antagonist domain of the 'stressosome' complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 376686007852 hydroperoxidase II; Provisional; Region: katE; PRK11249 376686007853 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 376686007854 tetramer interface [polypeptide binding]; other site 376686007855 heme binding pocket [chemical binding]; other site 376686007856 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 376686007857 domain interactions; other site 376686007858 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 376686007859 dimerization interface [polypeptide binding]; other site 376686007860 metal binding site [ion binding]; metal-binding site 376686007861 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 376686007862 Sulfatase; Region: Sulfatase; cl10460 376686007863 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 376686007864 Sulfatase; Region: Sulfatase; cl10460 376686007865 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 376686007866 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 376686007867 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686007868 active site 376686007869 aromatic amino acid transporter; Provisional; Region: PRK10238 376686007870 Protein of unknown function (DUF4255); Region: DUF4255; pfam14065 376686007871 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 376686007872 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 376686007873 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; cl12125 376686007874 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; cl12125 376686007875 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 376686007876 putative peptidoglycan binding site; other site 376686007877 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 376686007878 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 376686007879 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 376686007880 PAAR motif; Region: PAAR_motif; cl15808 376686007881 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 376686007882 Baseplate J-like protein; Region: Baseplate_J; cl01294 376686007883 Baseplate J-like protein; Region: Baseplate_J; cl01294 376686007884 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 376686007885 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 376686007886 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 376686007887 Phage-related protein [Function unknown]; Region: COG5412 376686007888 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 376686007889 AAA family ATPase, CDC48 subfamily; Region: CDC48; TIGR01243 376686007890 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 376686007891 Walker A motif; other site 376686007892 ATP binding site [chemical binding]; other site 376686007893 Walker B motif; other site 376686007894 arginine finger; other site 376686007895 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 376686007896 active site 376686007897 iron coordination sites [ion binding]; other site 376686007898 substrate binding pocket [chemical binding]; other site 376686007899 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 376686007900 putative FMN binding site [chemical binding]; other site 376686007901 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 376686007902 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686007903 catalytic residue [active] 376686007904 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 376686007905 IucA / IucC family; Region: IucA_IucC; pfam04183 376686007906 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 376686007907 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 376686007908 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 376686007909 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 376686007910 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 376686007911 IucA / IucC family; Region: IucA_IucC; pfam04183 376686007912 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 376686007913 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 376686007914 MatE; Region: MatE; cl10513 376686007915 MatE; Region: MatE; cl10513 376686007916 Phosphopantetheine attachment site; Region: PP-binding; cl09936 376686007917 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 376686007918 AMP-binding enzyme; Region: AMP-binding; cl15778 376686007919 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 376686007920 Acyltransferase family; Region: Acyl_transf_3; pfam01757 376686007921 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686007922 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686007923 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 376686007924 N-terminal plug; other site 376686007925 ligand-binding site [chemical binding]; other site 376686007926 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 376686007927 AsmA family; Region: AsmA; pfam05170 376686007928 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 376686007929 AsmA-like C-terminal region; Region: AsmA_2; cl15864 376686007930 Alkaline phosphatase homologues; Region: alkPPc; smart00098 376686007931 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 376686007932 active site 376686007933 dimer interface [polypeptide binding]; other site 376686007934 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686007935 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 376686007936 active site 376686007937 metal binding site [ion binding]; metal-binding site 376686007938 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 376686007939 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 376686007940 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 376686007941 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 376686007942 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 376686007943 Uncharacterized conserved protein [Function unknown]; Region: COG2898 376686007944 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 376686007945 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686007946 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 376686007947 active site 376686007948 metal binding site [ion binding]; metal-binding site 376686007949 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 376686007950 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686007951 NAD(P) binding site [chemical binding]; other site 376686007952 active site 376686007953 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 376686007954 ligand binding site [chemical binding]; other site 376686007955 flexible hinge region; other site 376686007956 Helix-turn-helix domains; Region: HTH; cl00088 376686007957 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686007958 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 376686007959 NAD(P) binding site [chemical binding]; other site 376686007960 active site 376686007961 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 376686007962 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 376686007963 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 376686007964 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 376686007965 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 376686007966 Mechanosensitive ion channel; Region: MS_channel; pfam00924 376686007967 Response regulator receiver domain; Region: Response_reg; pfam00072 376686007968 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 376686007969 active site 376686007970 phosphorylation site [posttranslational modification] 376686007971 intermolecular recognition site; other site 376686007972 dimerization interface [polypeptide binding]; other site 376686007973 PAS domain S-box; Region: sensory_box; TIGR00229 376686007974 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 376686007975 PAS fold; Region: PAS_4; pfam08448 376686007976 PAS fold; Region: PAS_3; pfam08447 376686007977 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 376686007978 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 376686007979 PAS fold; Region: PAS_3; pfam08447 376686007980 putative active site [active] 376686007981 heme pocket [chemical binding]; other site 376686007982 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 376686007983 dimer interface [polypeptide binding]; other site 376686007984 phosphorylation site [posttranslational modification] 376686007985 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 376686007986 ATP binding site [chemical binding]; other site 376686007987 Mg2+ binding site [ion binding]; other site 376686007988 G-X-G motif; other site 376686007989 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 376686007990 metal binding site [ion binding]; metal-binding site 376686007991 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 376686007992 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 376686007993 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 376686007994 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686007995 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 376686007996 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 376686007997 Protein of unknown function (DUF763); Region: DUF763; cl00620 376686007998 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686007999 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 376686008000 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 376686008001 Helix-turn-helix domains; Region: HTH; cl00088 376686008002 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 376686008003 Helix-turn-helix domains; Region: HTH; cl00088 376686008004 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 376686008005 classical (c) SDRs; Region: SDR_c; cd05233 376686008006 NAD(P) binding site [chemical binding]; other site 376686008007 active site 376686008008 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 376686008009 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 376686008010 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 376686008011 ligand binding site [chemical binding]; other site 376686008012 flexible hinge region; other site 376686008013 Dehydratase family; Region: ILVD_EDD; cl00340 376686008014 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 376686008015 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 376686008016 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 376686008017 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 376686008018 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 376686008019 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686008020 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 376686008021 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 376686008022 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686008023 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 376686008024 active site 376686008025 phosphorylation site [posttranslational modification] 376686008026 intermolecular recognition site; other site 376686008027 dimerization interface [polypeptide binding]; other site 376686008028 LytTr DNA-binding domain; Region: LytTR; cl04498 376686008029 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 376686008030 Histidine kinase; Region: His_kinase; pfam06580 376686008031 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 376686008032 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 376686008033 dimer interface [polypeptide binding]; other site 376686008034 active site 376686008035 CoA binding pocket [chemical binding]; other site 376686008036 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 376686008037 Ligand Binding Site [chemical binding]; other site 376686008038 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 376686008039 Ligand Binding Site [chemical binding]; other site 376686008040 CAAX protease self-immunity; Region: Abi; cl00558 376686008041 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686008042 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 376686008043 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 376686008044 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 376686008045 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 376686008046 nucleosidase; Provisional; Region: PRK05634 376686008047 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 376686008048 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 376686008049 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686008050 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 376686008051 putative active site [active] 376686008052 metal binding site [ion binding]; metal-binding site 376686008053 Predicted esterase [General function prediction only]; Region: COG0400 376686008054 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 376686008055 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 376686008056 active site 376686008057 nucleophile elbow; other site 376686008058 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 376686008059 MG2 domain; Region: A2M_N; pfam01835 376686008060 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686008061 Oligosaccharyltransferase subunit Ribophorin II; Region: Ribophorin_II; pfam05817 376686008062 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686008063 leucine-rich repeat receptor-like protein kinase; Provisional; Region: PLN00113 376686008064 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 376686008065 Substrate binding site [chemical binding]; other site 376686008066 leucine-rich repeat receptor-like protein kinase; Provisional; Region: PLN00113 376686008067 leucine-rich repeat receptor-like protein kinase; Provisional; Region: PLN00113 376686008068 Leucine rich repeat; Region: LRR_8; pfam13855 376686008069 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 376686008070 leucine-rich repeat receptor-like protein kinase; Provisional; Region: PLN00113 376686008071 leucine-rich repeat receptor-like protein kinase; Provisional; Region: PLN00113 376686008072 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686008073 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 376686008074 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686008075 active site 376686008076 Uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipaseand Glycerophosphodiester phosphodiesterases; Region: PI-PLCc_GDPD_SF_unchar3; cd08577 376686008077 putative active site [active] 376686008078 catalytic site [active] 376686008079 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 376686008080 dimer interface [polypeptide binding]; other site 376686008081 Alkaline phosphatase homologues; Region: alkPPc; smart00098 376686008082 active site 376686008083 starch binding outer membrane protein SusD; Region: SusD; cl15876 376686008084 starch binding outer membrane protein SusD; Region: SusD; cl15876 376686008085 Secretin and TonB N terminus short domain; Region: STN; cl06624 376686008086 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686008087 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686008088 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 376686008089 fec operon regulator FecR; Reviewed; Region: PRK09774 376686008090 FecR protein; Region: FecR; pfam04773 376686008091 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 376686008092 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686008093 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 376686008094 Protein of unknown function (DUF3289); Region: DUF3289; cl11840 376686008095 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 376686008096 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 376686008097 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 376686008098 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 376686008099 Protein of unknown function (DUF877); Region: DUF877; pfam05943 376686008100 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 376686008101 aspartyl-tRNA synthetase, bacterial type; Region: aspS_bact; TIGR00459 376686008102 Bacterial SH3 domain; Region: SH3_3; cl02551 376686008103 cell division protein FtsN; Provisional; Region: PRK12757 376686008104 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 376686008105 catalytic residue [active] 376686008106 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 376686008107 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 376686008108 NlpC/P60 family; Region: NLPC_P60; cl11438 376686008109 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 376686008110 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 376686008111 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 376686008112 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686008113 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 376686008114 Walker A motif; other site 376686008115 ATP binding site [chemical binding]; other site 376686008116 Walker B motif; other site 376686008117 arginine finger; other site 376686008118 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 376686008119 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 376686008120 Sulfatase; Region: Sulfatase; cl10460 376686008121 Uncharacterized conserved protein [Function unknown]; Region: COG5361 376686008122 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 376686008123 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 376686008124 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686008125 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 376686008126 N-terminal plug; other site 376686008127 ligand-binding site [chemical binding]; other site 376686008128 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 376686008129 Helix-turn-helix domains; Region: HTH; cl00088 376686008130 short chain dehydrogenase; Provisional; Region: PRK08263 376686008131 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 376686008132 NADP binding site [chemical binding]; other site 376686008133 active site 376686008134 steroid binding site; other site 376686008135 probable cinnamyl alcohol dehydrogenase; Region: PLN02586 376686008136 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 376686008137 putative NAD(P) binding site [chemical binding]; other site 376686008138 putative substrate binding site [chemical binding]; other site 376686008139 catalytic Zn binding site [ion binding]; other site 376686008140 structural Zn binding site [ion binding]; other site 376686008141 dimer interface [polypeptide binding]; other site 376686008142 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686008143 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 376686008144 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 376686008145 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686008146 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 376686008147 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686008148 Coenzyme A binding pocket [chemical binding]; other site 376686008149 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 376686008150 Helix-turn-helix domains; Region: HTH; cl00088 376686008151 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 376686008152 dimerization interface [polypeptide binding]; other site 376686008153 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 376686008154 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686008155 Coenzyme A binding pocket [chemical binding]; other site 376686008156 EamA-like transporter family; Region: EamA; cl01037 376686008157 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 376686008158 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 376686008159 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 376686008160 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 376686008161 active site 376686008162 DNA binding site [nucleotide binding] 376686008163 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 376686008164 DNA binding site [nucleotide binding] 376686008165 LigD_Pol_like_2: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 2. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required...; Region: LigD_Pol_like_2; cd04865 376686008166 nucleotide binding site [chemical binding]; other site 376686008167 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 376686008168 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 376686008169 putative DNA binding site [nucleotide binding]; other site 376686008170 putative homodimer interface [polypeptide binding]; other site 376686008171 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686008172 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686008173 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 376686008174 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 376686008175 DoxX; Region: DoxX; cl00976 376686008176 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 376686008177 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 376686008178 putative NAD(P) binding site [chemical binding]; other site 376686008179 dimer interface [polypeptide binding]; other site 376686008180 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 376686008181 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686008182 Coenzyme A binding pocket [chemical binding]; other site 376686008183 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 376686008184 binding surface 376686008185 TPR motif; other site 376686008186 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686008187 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 376686008188 binding surface 376686008189 TPR motif; other site 376686008190 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686008191 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 376686008192 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 376686008193 N-terminal plug; other site 376686008194 ligand-binding site [chemical binding]; other site 376686008195 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 376686008196 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686008197 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 376686008198 Protein of unknown function (DUF1634); Region: DUF1634; cl01741 376686008199 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 376686008200 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 376686008201 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686008202 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 376686008203 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 376686008204 N-terminal plug; other site 376686008205 ligand-binding site [chemical binding]; other site 376686008206 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 376686008207 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 376686008208 dimer interface [polypeptide binding]; other site 376686008209 active site 376686008210 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 376686008211 Helix-turn-helix domains; Region: HTH; cl00088 376686008212 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 376686008213 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 376686008214 putative metal binding site [ion binding]; other site 376686008215 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 376686008216 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686008217 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 376686008218 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686008219 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 376686008220 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 376686008221 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 376686008222 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 376686008223 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686008224 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 376686008225 Protein of unknown function (DUF1810); Region: DUF1810; cl02370 376686008226 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 376686008227 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 376686008228 Walker A/P-loop; other site 376686008229 ATP binding site [chemical binding]; other site 376686008230 Q-loop/lid; other site 376686008231 ABC transporter signature motif; other site 376686008232 Walker B; other site 376686008233 D-loop; other site 376686008234 H-loop/switch region; other site 376686008235 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 376686008236 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 376686008237 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 376686008238 ABC-2 type transporter; Region: ABC2_membrane; cl11417 376686008239 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 376686008240 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 376686008241 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 376686008242 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 376686008243 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 376686008244 DNA binding residues [nucleotide binding] 376686008245 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 376686008246 FecR protein; Region: FecR; pfam04773 376686008247 Secretin and TonB N terminus short domain; Region: STN; cl06624 376686008248 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686008249 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686008250 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 376686008251 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686008252 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 376686008253 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686008254 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 376686008255 active site 376686008256 metal binding site [ion binding]; metal-binding site 376686008257 Surface antigen; Region: Bac_surface_Ag; cl03097 376686008258 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 376686008259 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 376686008260 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 376686008261 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686008262 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 376686008263 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 376686008264 CheB methylesterase; Region: CheB_methylest; pfam01339 376686008265 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 376686008266 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 376686008267 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686008268 Response regulator receiver domain; Region: Response_reg; pfam00072 376686008269 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 376686008270 active site 376686008271 phosphorylation site [posttranslational modification] 376686008272 intermolecular recognition site; other site 376686008273 dimerization interface [polypeptide binding]; other site 376686008274 CHASE3 domain; Region: CHASE3; cl05000 376686008275 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 376686008276 GAF domain; Region: GAF_2; pfam13185 376686008277 GAF domain; Region: GAF; cl15785 376686008278 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 376686008279 dimer interface [polypeptide binding]; other site 376686008280 phosphorylation site [posttranslational modification] 376686008281 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 376686008282 ATP binding site [chemical binding]; other site 376686008283 Mg2+ binding site [ion binding]; other site 376686008284 G-X-G motif; other site 376686008285 Response regulator receiver domain; Region: Response_reg; pfam00072 376686008286 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 376686008287 active site 376686008288 phosphorylation site [posttranslational modification] 376686008289 intermolecular recognition site; other site 376686008290 dimerization interface [polypeptide binding]; other site 376686008291 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 376686008292 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 376686008293 active site 376686008294 phosphorylation site [posttranslational modification] 376686008295 intermolecular recognition site; other site 376686008296 Response regulator receiver domain; Region: Response_reg; pfam00072 376686008297 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 376686008298 active site 376686008299 phosphorylation site [posttranslational modification] 376686008300 intermolecular recognition site; other site 376686008301 dimerization interface [polypeptide binding]; other site 376686008302 Response regulator receiver domain; Region: Response_reg; pfam00072 376686008303 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 376686008304 active site 376686008305 phosphorylation site [posttranslational modification] 376686008306 intermolecular recognition site; other site 376686008307 dimerization interface [polypeptide binding]; other site 376686008308 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 376686008309 dimer interface [polypeptide binding]; other site 376686008310 phosphorylation site [posttranslational modification] 376686008311 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 376686008312 ATP binding site [chemical binding]; other site 376686008313 Mg2+ binding site [ion binding]; other site 376686008314 G-X-G motif; other site 376686008315 short chain dehydrogenase; Provisional; Region: PRK06701 376686008316 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 376686008317 NAD binding site [chemical binding]; other site 376686008318 metal binding site [ion binding]; metal-binding site 376686008319 active site 376686008320 PQ loop repeat; Region: PQ-loop; cl12056 376686008321 PAS fold; Region: PAS_4; pfam08448 376686008322 PAS domain; Region: PAS_9; pfam13426 376686008323 PAS fold; Region: PAS_4; pfam08448 376686008324 PAS fold; Region: PAS_4; pfam08448 376686008325 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 376686008326 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 376686008327 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 376686008328 putative active site [active] 376686008329 heme pocket [chemical binding]; other site 376686008330 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 376686008331 dimer interface [polypeptide binding]; other site 376686008332 phosphorylation site [posttranslational modification] 376686008333 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 376686008334 ATP binding site [chemical binding]; other site 376686008335 Mg2+ binding site [ion binding]; other site 376686008336 G-X-G motif; other site 376686008337 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 376686008338 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 376686008339 active site 376686008340 phosphorylation site [posttranslational modification] 376686008341 intermolecular recognition site; other site 376686008342 dimerization interface [polypeptide binding]; other site 376686008343 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 376686008344 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 376686008345 Protein of unknown function DUF72; Region: DUF72; cl00777 376686008346 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 376686008347 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: BaFpgNei_N_2; cd08974 376686008348 putative DNA binding site [nucleotide binding]; other site 376686008349 catalytic residue [active] 376686008350 putative H2TH interface [polypeptide binding]; other site 376686008351 putative catalytic residues [active] 376686008352 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 376686008353 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 376686008354 dimerization interface [polypeptide binding]; other site 376686008355 metal binding site [ion binding]; metal-binding site 376686008356 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 376686008357 DNA binding site [nucleotide binding] 376686008358 active site 376686008359 Int/Topo IB signature motif; other site 376686008360 catalytic residues [active] 376686008361 Domain of unknown function (DUF305); Region: DUF305; cl15795 376686008362 Cupin domain; Region: Cupin_2; cl09118 376686008363 Cupin domain; Region: Cupin_2; cl09118 376686008364 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686008365 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686008366 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 376686008367 Helix-turn-helix domains; Region: HTH; cl00088 376686008368 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 376686008369 CoenzymeA binding site [chemical binding]; other site 376686008370 subunit interaction site [polypeptide binding]; other site 376686008371 PHB binding site; other site 376686008372 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 376686008373 Major Facilitator Superfamily; Region: MFS_1; pfam07690 376686008374 putative substrate translocation pore; other site 376686008375 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 376686008376 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 376686008377 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 376686008378 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 376686008379 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 376686008380 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686008381 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686008382 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 376686008383 catalytic residues [active] 376686008384 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 376686008385 dimerization interface [polypeptide binding]; other site 376686008386 putative DNA binding site [nucleotide binding]; other site 376686008387 putative Zn2+ binding site [ion binding]; other site 376686008388 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 376686008389 putative active site [active] 376686008390 putative FMN binding site [chemical binding]; other site 376686008391 putative substrate binding site [chemical binding]; other site 376686008392 putative catalytic residue [active] 376686008393 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 376686008394 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 376686008395 active site 376686008396 HIGH motif; other site 376686008397 dimer interface [polypeptide binding]; other site 376686008398 KMSKS motif; other site 376686008399 OpgC protein; Region: OpgC_C; cl00792 376686008400 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 376686008401 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 376686008402 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 376686008403 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 376686008404 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686008405 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 376686008406 putative substrate binding pocket [chemical binding]; other site 376686008407 trimer interface [polypeptide binding]; other site 376686008408 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 376686008409 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 376686008410 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 376686008411 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686008412 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 376686008413 nudix motif; other site 376686008414 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 376686008415 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 376686008416 active site 376686008417 Predicted permeases [General function prediction only]; Region: RarD; COG2962 376686008418 EamA-like transporter family; Region: EamA; cl01037 376686008419 EamA-like transporter family; Region: EamA; cl01037 376686008420 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 376686008421 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 376686008422 DNA-binding site [nucleotide binding]; DNA binding site 376686008423 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 376686008424 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686008425 homodimer interface [polypeptide binding]; other site 376686008426 catalytic residue [active] 376686008427 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 376686008428 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 376686008429 dimerization interface [polypeptide binding]; other site 376686008430 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 376686008431 dimer interface [polypeptide binding]; other site 376686008432 phosphorylation site [posttranslational modification] 376686008433 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 376686008434 ATP binding site [chemical binding]; other site 376686008435 Mg2+ binding site [ion binding]; other site 376686008436 G-X-G motif; other site 376686008437 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 376686008438 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 376686008439 active site 376686008440 phosphorylation site [posttranslational modification] 376686008441 intermolecular recognition site; other site 376686008442 dimerization interface [polypeptide binding]; other site 376686008443 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 376686008444 DNA binding site [nucleotide binding] 376686008445 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 376686008446 Surface antigen; Region: Bac_surface_Ag; cl03097 376686008447 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 376686008448 Aspartase; Region: Aspartase; cd01357 376686008449 active sites [active] 376686008450 tetramer interface [polypeptide binding]; other site 376686008451 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 376686008452 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 376686008453 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 376686008454 Major Facilitator Superfamily; Region: MFS_1; pfam07690 376686008455 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 376686008456 putative substrate translocation pore; other site 376686008457 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 376686008458 Helix-turn-helix domains; Region: HTH; cl00088 376686008459 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 376686008460 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686008461 Coenzyme A binding pocket [chemical binding]; other site 376686008462 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 376686008463 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 376686008464 active site 376686008465 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 376686008466 active site 376686008467 dinuclear metal binding site [ion binding]; other site 376686008468 dimerization interface [polypeptide binding]; other site 376686008469 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 376686008470 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 376686008471 dimer interface [polypeptide binding]; other site 376686008472 glycine-pyridoxal phosphate binding site [chemical binding]; other site 376686008473 active site 376686008474 folate binding site [chemical binding]; other site 376686008475 fumarylacetoacetase; Region: PLN02856 376686008476 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 376686008477 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 376686008478 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 376686008479 agmatine deiminase; Region: agmatine_aguA; TIGR03380 376686008480 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 376686008481 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 376686008482 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 376686008483 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686008484 ligand binding site [chemical binding]; other site 376686008485 N-carbamolyputrescine amidase; Region: PLN02747 376686008486 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 376686008487 putative active site; other site 376686008488 catalytic triad [active] 376686008489 putative dimer interface [polypeptide binding]; other site 376686008490 Protein of unknown function (DUF808); Region: DUF808; cl01002 376686008491 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686008492 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 376686008493 Clp amino terminal domain; Region: Clp_N; pfam02861 376686008494 Clp amino terminal domain; Region: Clp_N; pfam02861 376686008495 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 376686008496 Walker A motif; other site 376686008497 ATP binding site [chemical binding]; other site 376686008498 Walker B motif; other site 376686008499 arginine finger; other site 376686008500 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 376686008501 Walker A motif; other site 376686008502 ATP binding site [chemical binding]; other site 376686008503 Walker B motif; other site 376686008504 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 376686008505 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 376686008506 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 376686008507 Lyase; Region: Lyase_1; pfam00206 376686008508 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 376686008509 active sites [active] 376686008510 tetramer interface [polypeptide binding]; other site 376686008511 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 376686008512 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like5; cd05651 376686008513 metal binding site [ion binding]; metal-binding site 376686008514 dimer interface [polypeptide binding]; other site 376686008515 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 376686008516 nucleotide binding site [chemical binding]; other site 376686008517 N-acetyl-L-glutamate binding site [chemical binding]; other site 376686008518 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 376686008519 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686008520 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 376686008521 nucleotide binding site [chemical binding]; other site 376686008522 homotetrameric interface [polypeptide binding]; other site 376686008523 putative phosphate binding site [ion binding]; other site 376686008524 putative allosteric binding site; other site 376686008525 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 376686008526 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 376686008527 putative catalytic cysteine [active] 376686008528 acetylornithine aminotransferase; Provisional; Region: PRK02627 376686008529 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 376686008530 inhibitor-cofactor binding pocket; inhibition site 376686008531 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686008532 catalytic residue [active] 376686008533 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 376686008534 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686008535 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 376686008536 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 376686008537 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 376686008538 Ligand Binding Site [chemical binding]; other site 376686008539 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 376686008540 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 376686008541 Zn binding site [ion binding]; other site 376686008542 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 376686008543 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 376686008544 active site 376686008545 catalytic residues [active] 376686008546 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 376686008547 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 376686008548 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 376686008549 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 376686008550 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 376686008551 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 376686008552 SmpB-tmRNA interface; other site 376686008553 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 376686008554 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 376686008555 non-specific DNA binding site [nucleotide binding]; other site 376686008556 salt bridge; other site 376686008557 sequence-specific DNA binding site [nucleotide binding]; other site 376686008558 Fic family protein [Function unknown]; Region: COG3177 376686008559 Fic/DOC family; Region: Fic; cl00960 376686008560 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 376686008561 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686008562 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 376686008563 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686008564 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 376686008565 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 376686008566 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686008567 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 376686008568 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 376686008569 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 376686008570 catalytic residue [active] 376686008571 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 376686008572 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 376686008573 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 376686008574 active site 376686008575 substrate binding site [chemical binding]; other site 376686008576 catalytic site [active] 376686008577 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 376686008578 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 376686008579 GIY-YIG motif/motif A; other site 376686008580 active site 376686008581 catalytic site [active] 376686008582 putative DNA binding site [nucleotide binding]; other site 376686008583 metal binding site [ion binding]; metal-binding site 376686008584 Ion transport protein; Region: Ion_trans; pfam00520 376686008585 Ion channel; Region: Ion_trans_2; cl11596 376686008586 Double zinc ribbon; Region: DZR; pfam12773 376686008587 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 376686008588 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686008589 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 376686008590 active site 376686008591 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 376686008592 invasion protein regulator; Provisional; Region: PRK12370 376686008593 RF-1 domain; Region: RF-1; cl02875 376686008594 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 376686008595 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 376686008596 hypothetical protein; Reviewed; Region: PRK09588 376686008597 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 376686008598 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 376686008599 active site 376686008600 phosphorylation site [posttranslational modification] 376686008601 intermolecular recognition site; other site 376686008602 dimerization interface [polypeptide binding]; other site 376686008603 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 376686008604 DNA binding site [nucleotide binding] 376686008605 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 376686008606 dimer interface [polypeptide binding]; other site 376686008607 phosphorylation site [posttranslational modification] 376686008608 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 376686008609 ATP binding site [chemical binding]; other site 376686008610 Mg2+ binding site [ion binding]; other site 376686008611 G-X-G motif; other site 376686008612 dephospho-CoA kinase; Provisional; Region: coaE; PRK14731 376686008613 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 376686008614 CoA-binding site [chemical binding]; other site 376686008615 ATP-binding [chemical binding]; other site 376686008616 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 376686008617 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 376686008618 active site 376686008619 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 376686008620 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 376686008621 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686008622 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 376686008623 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 376686008624 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 376686008625 Walker A/P-loop; other site 376686008626 ATP binding site [chemical binding]; other site 376686008627 Q-loop/lid; other site 376686008628 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 376686008629 ABC transporter signature motif; other site 376686008630 Walker B; other site 376686008631 D-loop; other site 376686008632 H-loop/switch region; other site 376686008633 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 376686008634 Flavoprotein; Region: Flavoprotein; cl08021 376686008635 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 376686008636 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 376686008637 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 376686008638 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 376686008639 dihydrodipicolinate synthase; Region: dapA; TIGR00674 376686008640 dimer interface [polypeptide binding]; other site 376686008641 active site 376686008642 catalytic residue [active] 376686008643 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 376686008644 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase precursor protein; Reviewed; Region: PRK11907 376686008645 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 376686008646 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 376686008647 active site 376686008648 metal binding site [ion binding]; metal-binding site 376686008649 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 376686008650 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 376686008651 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 376686008652 nucleotide binding pocket [chemical binding]; other site 376686008653 K-X-D-G motif; other site 376686008654 catalytic site [active] 376686008655 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 376686008656 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 376686008657 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 376686008658 Dimer interface [polypeptide binding]; other site 376686008659 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 376686008660 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686008661 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 376686008662 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686008663 ligand binding site [chemical binding]; other site 376686008664 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 376686008665 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686008666 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686008667 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 376686008668 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 376686008669 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 376686008670 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 376686008671 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 376686008672 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686008673 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 376686008674 active site 376686008675 phosphorylation site [posttranslational modification] 376686008676 intermolecular recognition site; other site 376686008677 dimerization interface [polypeptide binding]; other site 376686008678 LytTr DNA-binding domain; Region: LytTR; cl04498 376686008679 primosome assembly protein PriA; Validated; Region: PRK05580 376686008680 primosome assembly protein PriA; Validated; Region: PRK05580 376686008681 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 376686008682 ATP binding site [chemical binding]; other site 376686008683 putative Mg++ binding site [ion binding]; other site 376686008684 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 376686008685 ATP-binding site [chemical binding]; other site 376686008686 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 376686008687 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 376686008688 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 376686008689 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 376686008690 nicotinate-nucleotide diphosphorylase (carboxylating); Region: PLN02716 376686008691 dimerization interface [polypeptide binding]; other site 376686008692 active site 376686008693 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 376686008694 Pirin-related protein [General function prediction only]; Region: COG1741 376686008695 Cupin domain; Region: Cupin_2; cl09118 376686008696 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 376686008697 OsmC-like protein; Region: OsmC; cl00767 376686008698 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686008699 Coenzyme A binding pocket [chemical binding]; other site 376686008700 adenosine deaminase-related growth factor; Region: adm_rel; TIGR01431 376686008701 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 376686008702 active site 376686008703 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 376686008704 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 376686008705 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 376686008706 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 376686008707 dihydropteroate synthase; Region: DHPS; TIGR01496 376686008708 substrate binding pocket [chemical binding]; other site 376686008709 dimer interface [polypeptide binding]; other site 376686008710 inhibitor binding site; inhibition site 376686008711 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 376686008712 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 376686008713 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 376686008714 catalytic residues [active] 376686008715 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 376686008716 substrate binding site [chemical binding]; other site 376686008717 dimer interface [polypeptide binding]; other site 376686008718 catalytic triad [active] 376686008719 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 376686008720 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686008721 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 376686008722 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 376686008723 YhhN-like protein; Region: YhhN; cl01505 376686008724 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 376686008725 NeuB family; Region: NeuB; cl00496 376686008726 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 376686008727 Coenzyme Q (ubiquinone) biosynthesis protein Coq4; Region: Coq4; cl02093 376686008728 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 376686008729 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 376686008730 PA/protease or protease-like domain interface [polypeptide binding]; other site 376686008731 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 376686008732 metal binding site [ion binding]; metal-binding site 376686008733 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686008734 active site 376686008735 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 376686008736 sugar binding site [chemical binding]; other site 376686008737 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 376686008738 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 376686008739 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 376686008740 active site 376686008741 catalytic site [active] 376686008742 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 376686008743 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 376686008744 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 376686008745 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686008746 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 376686008747 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 376686008748 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 376686008749 Putative glucoamylase; Region: Glycoamylase; pfam10091 376686008750 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686008751 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686008752 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686008753 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 376686008754 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 376686008755 Helix-turn-helix domains; Region: HTH; cl00088 376686008756 Protein of unknown function (DUF3995); Region: DUF3995; pfam13160 376686008757 Acetokinase family; Region: Acetate_kinase; cl01029 376686008758 propionate/acetate kinase; Provisional; Region: PRK12379 376686008759 phosphate acetyltransferase; Reviewed; Region: PRK05632 376686008760 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686008761 DRTGG domain; Region: DRTGG; cl12147 376686008762 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 376686008763 magnesium Mg(2+) and cobalt Co(2+) transport protein (corA); Region: corA; TIGR00383 376686008764 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 376686008765 Restriction endonuclease; Region: Mrr_cat; cl00516 376686008766 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 376686008767 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 376686008768 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686008769 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 376686008770 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 376686008771 Bacteroides conjugative transposon TraM protein; Region: Bac_Flav_CT_M; TIGR03779 376686008772 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 376686008773 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 376686008774 Bacteroides conjugative transposon TraJ protein; Region: Bac_Flav_CT_J; TIGR03782 376686008775 Domain of unknown function, B. Theta Gene description (DUF3875); Region: DUF3875; pfam12991 376686008776 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 376686008777 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 376686008778 Domain of unknown function DUF87; Region: DUF87; pfam01935 376686008779 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 376686008780 cofactor binding site; other site 376686008781 Domain of unknown function (DUF4133); Region: DUF4133; pfam13571 376686008782 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 376686008783 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686008784 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686008785 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686008786 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686008787 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686008788 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686008789 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 376686008790 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686008791 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 376686008792 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 376686008793 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 376686008794 YWFCY protein; Region: YWFCY; pfam14293 376686008795 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686008796 AAA-like domain; Region: AAA_10; pfam12846 376686008797 Walker A motif; other site 376686008798 ATP binding site [chemical binding]; other site 376686008799 Walker B motif; other site 376686008800 Protein of unknown function (DUF1810); Region: DUF1810; cl02370 376686008801 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 376686008802 active site 376686008803 phosphorylation site [posttranslational modification] 376686008804 intermolecular recognition site; other site 376686008805 dimerization interface [polypeptide binding]; other site 376686008806 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 376686008807 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 376686008808 active site 376686008809 DNA binding site [nucleotide binding] 376686008810 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 376686008811 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 376686008812 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 376686008813 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 376686008814 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 376686008815 ATP binding site [chemical binding]; other site 376686008816 putative Mg++ binding site [ion binding]; other site 376686008817 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686008818 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 376686008819 dimer interface [polypeptide binding]; other site 376686008820 ssDNA binding site [nucleotide binding]; other site 376686008821 tetramer (dimer of dimers) interface [polypeptide binding]; other site 376686008822 PcfK-like protein; Region: PcfK; pfam14058 376686008823 PcfJ-like protein; Region: PcfJ; pfam14284 376686008824 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 376686008825 MPN+ (JAMM) motif; other site 376686008826 Zinc-binding site [ion binding]; other site 376686008827 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 376686008828 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 376686008829 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 376686008830 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 376686008831 Int/Topo IB signature motif; other site 376686008832 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 376686008833 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 376686008834 Competence protein CoiA-like family; Region: CoiA; cl11541 376686008835 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 376686008836 putative active site [active] 376686008837 catalytic site [active] 376686008838 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 376686008839 Domain of unknown function (DUF4329); Region: DUF4329; pfam14220 376686008840 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 376686008841 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 376686008842 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 376686008843 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 376686008844 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 376686008845 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 376686008846 DNA binding site [nucleotide binding] 376686008847 Int/Topo IB signature motif; other site 376686008848 active site 376686008849 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 376686008850 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 376686008851 DNA binding site [nucleotide binding] 376686008852 Int/Topo IB signature motif; other site 376686008853 active site 376686008854 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 376686008855 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 376686008856 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 376686008857 non-specific DNA binding site [nucleotide binding]; other site 376686008858 salt bridge; other site 376686008859 sequence-specific DNA binding site [nucleotide binding]; other site 376686008860 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 376686008861 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 376686008862 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686008863 AAA domain; Region: AAA_33; pfam13671 376686008864 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 376686008865 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 376686008866 DNA binding site [nucleotide binding] 376686008867 Int/Topo IB signature motif; other site 376686008868 active site 376686008869 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 376686008870 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 376686008871 DNA binding site [nucleotide binding] 376686008872 Int/Topo IB signature motif; other site 376686008873 active site 376686008874 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 376686008875 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 376686008876 non-specific DNA binding site [nucleotide binding]; other site 376686008877 salt bridge; other site 376686008878 sequence-specific DNA binding site [nucleotide binding]; other site 376686008879 Protein of unknown function (DUF4240); Region: DUF4240; pfam14024 376686008880 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 376686008881 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 376686008882 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 376686008883 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 376686008884 putative active site [active] 376686008885 putative metal-binding site [ion binding]; other site 376686008886 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686008887 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 376686008888 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686008889 active site 376686008890 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 376686008891 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 376686008892 MPN+ (JAMM) motif; other site 376686008893 Zinc-binding site [ion binding]; other site 376686008894 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 376686008895 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 376686008896 active site 376686008897 NTP binding site [chemical binding]; other site 376686008898 metal binding triad [ion binding]; metal-binding site 376686008899 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 376686008900 active site 376686008901 ATP binding site [chemical binding]; other site 376686008902 substrate binding site [chemical binding]; other site 376686008903 activation loop (A-loop); other site 376686008904 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 376686008905 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 376686008906 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 376686008907 DNA binding site [nucleotide binding] 376686008908 Int/Topo IB signature motif; other site 376686008909 active site 376686008910 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 376686008911 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 376686008912 DNA binding site [nucleotide binding] 376686008913 Int/Topo IB signature motif; other site 376686008914 active site 376686008915 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 376686008916 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 376686008917 non-specific DNA binding site [nucleotide binding]; other site 376686008918 salt bridge; other site 376686008919 sequence-specific DNA binding site [nucleotide binding]; other site 376686008920 Protein of unknown function (DUF4240); Region: DUF4240; pfam14024 376686008921 Protein of unknown function (DUF1436); Region: DUF1436; pfam07262 376686008922 TPR repeat; Region: TPR_11; pfam13414 376686008923 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 376686008924 binding surface 376686008925 TPR motif; other site 376686008926 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686008927 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 376686008928 binding surface 376686008929 TPR motif; other site 376686008930 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 376686008931 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 376686008932 Competence protein CoiA-like family; Region: CoiA; cl11541 376686008933 Domain of unknown function DUF87; Region: DUF87; pfam01935 376686008934 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 376686008935 Restriction endonuclease; Region: Mrr_cat; cl00516 376686008936 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 376686008937 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 376686008938 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 376686008939 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 376686008940 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 376686008941 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 376686008942 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 376686008943 DNA binding site [nucleotide binding] 376686008944 Int/Topo IB signature motif; other site 376686008945 active site 376686008946 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 376686008947 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 376686008948 DNA binding site [nucleotide binding] 376686008949 Int/Topo IB signature motif; other site 376686008950 active site 376686008951 Predicted transcriptional regulator [Transcription]; Region: COG3355 376686008952 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 376686008953 DNA binding site [nucleotide binding] 376686008954 Int/Topo IB signature motif; other site 376686008955 active site 376686008956 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 376686008957 Predicted ATPase [General function prediction only]; Region: COG4637 376686008958 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686008959 Walker A/P-loop; other site 376686008960 ATP binding site [chemical binding]; other site 376686008961 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686008962 ABC transporter signature motif; other site 376686008963 Walker B; other site 376686008964 D-loop; other site 376686008965 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 376686008966 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 376686008967 DNA binding site [nucleotide binding] 376686008968 Int/Topo IB signature motif; other site 376686008969 active site 376686008970 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 376686008971 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 376686008972 DNA binding site [nucleotide binding] 376686008973 Int/Topo IB signature motif; other site 376686008974 active site 376686008975 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 376686008976 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 376686008977 non-specific DNA binding site [nucleotide binding]; other site 376686008978 salt bridge; other site 376686008979 sequence-specific DNA binding site [nucleotide binding]; other site 376686008980 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 376686008981 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 376686008982 putative active site [active] 376686008983 putative NTP binding site [chemical binding]; other site 376686008984 putative nucleic acid binding site [nucleotide binding]; other site 376686008985 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 376686008986 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 376686008987 RHS Repeat; Region: RHS_repeat; cl11982 376686008988 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686008989 transcriptional activator FtrB; Provisional; Region: ftrB; PRK09392 376686008990 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 376686008991 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 376686008992 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 376686008993 homotrimer interaction site [polypeptide binding]; other site 376686008994 putative active site [active] 376686008995 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 376686008996 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 376686008997 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 376686008998 Cupin domain; Region: Cupin_2; cl09118 376686008999 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 376686009000 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 376686009001 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 376686009002 active site 376686009003 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 376686009004 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686009005 Response regulator receiver domain; Region: Response_reg; pfam00072 376686009006 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 376686009007 active site 376686009008 phosphorylation site [posttranslational modification] 376686009009 intermolecular recognition site; other site 376686009010 dimerization interface [polypeptide binding]; other site 376686009011 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 376686009012 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686009013 NAD(P) binding site [chemical binding]; other site 376686009014 active site 376686009015 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 376686009016 short chain dehydrogenase; Provisional; Region: PRK07060 376686009017 classical (c) SDRs; Region: SDR_c; cd05233 376686009018 NAD(P) binding site [chemical binding]; other site 376686009019 active site 376686009020 Protein of unknown function (DUF2805); Region: DUF2805; cl11923 376686009021 PAS fold; Region: PAS_4; pfam08448 376686009022 putative diguanylate cyclase; Provisional; Region: PRK09776 376686009023 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 376686009024 dimer interface [polypeptide binding]; other site 376686009025 phosphorylation site [posttranslational modification] 376686009026 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 376686009027 ATP binding site [chemical binding]; other site 376686009028 Mg2+ binding site [ion binding]; other site 376686009029 G-X-G motif; other site 376686009030 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686009031 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686009032 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 376686009033 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686009034 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 376686009035 NAD(P) binding site [chemical binding]; other site 376686009036 active site 376686009037 oxidoreductase; Provisional; Region: PRK06196 376686009038 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 376686009039 putative NAD(P) binding site [chemical binding]; other site 376686009040 active site 376686009041 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686009042 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 376686009043 putative dimer interface [polypeptide binding]; other site 376686009044 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 376686009045 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 376686009046 tRNA; other site 376686009047 putative tRNA binding site [nucleotide binding]; other site 376686009048 putative NADP binding site [chemical binding]; other site 376686009049 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 376686009050 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 376686009051 ApbE family; Region: ApbE; cl00643 376686009052 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 376686009053 YWFCY protein; Region: YWFCY; pfam14293 376686009054 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 376686009055 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686009056 Walker A motif; other site 376686009057 ATP binding site [chemical binding]; other site 376686009058 Walker B motif; other site 376686009059 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 376686009060 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 376686009061 MPN+ (JAMM) motif; other site 376686009062 Zinc-binding site [ion binding]; other site 376686009063 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 376686009064 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 376686009065 active site 376686009066 phosphorylation site [posttranslational modification] 376686009067 intermolecular recognition site; other site 376686009068 dimerization interface [polypeptide binding]; other site 376686009069 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 376686009070 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 376686009071 active site 376686009072 DNA binding site [nucleotide binding] 376686009073 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 376686009074 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 376686009075 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 376686009076 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 376686009077 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 376686009078 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686009079 Family description; Region: UvrD_C_2; cl15862 376686009080 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 376686009081 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 376686009082 generic binding surface II; other site 376686009083 generic binding surface I; other site 376686009084 Exonuclease VII, large subunit; Region: Exonuc_VII_L; pfam02601 376686009085 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686009086 Helix-turn-helix domains; Region: HTH; cl00088 376686009087 putative transposase OrfB; Reviewed; Region: PHA02517 376686009088 HTH-like domain; Region: HTH_21; pfam13276 376686009089 Integrase core domain; Region: rve; cl01316 376686009090 Integrase core domain; Region: rve_3; cl15866 376686009091 Helix-turn-helix domains; Region: HTH; cl00088 376686009092 HTH-like domain; Region: HTH_21; pfam13276 376686009093 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 376686009094 classical (c) SDRs; Region: SDR_c; cd05233 376686009095 NAD(P) binding site [chemical binding]; other site 376686009096 active site 376686009097 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 376686009098 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 376686009099 Predicted integral membrane protein [Function unknown]; Region: COG5637 376686009100 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 376686009101 putative hydrophobic ligand binding site [chemical binding]; other site 376686009102 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 376686009103 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 376686009104 Response regulator receiver domain; Region: Response_reg; pfam00072 376686009105 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 376686009106 active site 376686009107 phosphorylation site [posttranslational modification] 376686009108 intermolecular recognition site; other site 376686009109 dimerization interface [polypeptide binding]; other site 376686009110 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 376686009111 active site 376686009112 phosphorylation site [posttranslational modification] 376686009113 intermolecular recognition site; other site 376686009114 PAS domain S-box; Region: sensory_box; TIGR00229 376686009115 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 376686009116 putative active site [active] 376686009117 heme pocket [chemical binding]; other site 376686009118 PAS fold; Region: PAS_4; pfam08448 376686009119 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 376686009120 putative active site [active] 376686009121 heme pocket [chemical binding]; other site 376686009122 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 376686009123 PAS fold; Region: PAS_3; pfam08447 376686009124 putative active site [active] 376686009125 heme pocket [chemical binding]; other site 376686009126 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686009127 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 376686009128 dimer interface [polypeptide binding]; other site 376686009129 phosphorylation site [posttranslational modification] 376686009130 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 376686009131 ATP binding site [chemical binding]; other site 376686009132 Mg2+ binding site [ion binding]; other site 376686009133 G-X-G motif; other site 376686009134 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686009135 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 376686009136 Putative esterase; Region: Esterase; pfam00756 376686009137 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 376686009138 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 376686009139 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 376686009140 catalytic residues [active] 376686009141 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 376686009142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686009143 NAD(P) binding site [chemical binding]; other site 376686009144 active site 376686009145 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 376686009146 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 376686009147 GtrA-like protein; Region: GtrA; cl00971 376686009148 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 376686009149 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 376686009150 active site 376686009151 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686009152 Secretin and TonB N terminus short domain; Region: STN; cl06624 376686009153 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686009154 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686009155 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 376686009156 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 376686009157 FecR protein; Region: FecR; pfam04773 376686009158 fec operon regulator FecR; Reviewed; Region: PRK09774 376686009159 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 376686009160 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686009161 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 376686009162 DNA binding residues [nucleotide binding] 376686009163 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 376686009164 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 376686009165 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686009166 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 376686009167 S-adenosylmethionine binding site [chemical binding]; other site 376686009168 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 376686009169 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 376686009170 malonyl-CoA binding site [chemical binding]; other site 376686009171 dimer interface [polypeptide binding]; other site 376686009172 active site 376686009173 product binding site; other site 376686009174 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 376686009175 active site 2 [active] 376686009176 active site 1 [active] 376686009177 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 376686009178 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 376686009179 dimer interface [polypeptide binding]; other site 376686009180 active site 376686009181 Phosphopantetheine attachment site; Region: PP-binding; cl09936 376686009182 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 376686009183 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 376686009184 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 376686009185 ligand binding site [chemical binding]; other site 376686009186 flexible hinge region; other site 376686009187 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 376686009188 Helix-turn-helix domains; Region: HTH; cl00088 376686009189 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 376686009190 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 376686009191 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 376686009192 active site 376686009193 phosphorylation site [posttranslational modification] 376686009194 intermolecular recognition site; other site 376686009195 dimerization interface [polypeptide binding]; other site 376686009196 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 376686009197 GAF domain; Region: GAF; cl15785 376686009198 Phytochrome region; Region: PHY; pfam00360 376686009199 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 376686009200 phosphorylation site [posttranslational modification] 376686009201 dimer interface [polypeptide binding]; other site 376686009202 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 376686009203 ATP binding site [chemical binding]; other site 376686009204 Mg2+ binding site [ion binding]; other site 376686009205 G-X-G motif; other site 376686009206 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 376686009207 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 376686009208 intermolecular recognition site; other site 376686009209 active site 376686009210 dimerization interface [polypeptide binding]; other site 376686009211 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 376686009212 active site 376686009213 phosphorylation site [posttranslational modification] 376686009214 intermolecular recognition site; other site 376686009215 dimerization interface [polypeptide binding]; other site 376686009216 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 376686009217 PAS fold; Region: PAS_4; pfam08448 376686009218 PAS domain S-box; Region: sensory_box; TIGR00229 376686009219 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 376686009220 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 376686009221 dimer interface [polypeptide binding]; other site 376686009222 phosphorylation site [posttranslational modification] 376686009223 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 376686009224 ATP binding site [chemical binding]; other site 376686009225 Mg2+ binding site [ion binding]; other site 376686009226 G-X-G motif; other site 376686009227 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 376686009228 active site 376686009229 phosphorylation site [posttranslational modification] 376686009230 intermolecular recognition site; other site 376686009231 dimerization interface [polypeptide binding]; other site 376686009232 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 376686009233 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686009234 NAD(P) binding site [chemical binding]; other site 376686009235 active site 376686009236 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686009237 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 376686009238 short chain dehydrogenase; Provisional; Region: PRK12828 376686009239 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686009240 NAD(P) binding site [chemical binding]; other site 376686009241 active site 376686009242 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 376686009243 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 376686009244 Ligand Binding Site [chemical binding]; other site 376686009245 TIGR03440 family protein; Region: unchr_TIGR03440 376686009246 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 376686009247 probable methyltransferase; Region: TIGR03438 376686009248 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 376686009249 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686009250 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 376686009251 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 376686009252 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 376686009253 dimer interface [polypeptide binding]; other site 376686009254 PYR/PP interface [polypeptide binding]; other site 376686009255 TPP binding site [chemical binding]; other site 376686009256 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 376686009257 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 376686009258 TPP-binding site [chemical binding]; other site 376686009259 dimer interface [polypeptide binding]; other site 376686009260 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 376686009261 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 376686009262 putative DNA binding site [nucleotide binding]; other site 376686009263 putative Zn2+ binding site [ion binding]; other site 376686009264 Helix-turn-helix domains; Region: HTH; cl00088 376686009265 Membrane transport protein; Region: Mem_trans; cl09117 376686009266 methionine synthase; Provisional; Region: PRK01207 376686009267 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 376686009268 substrate binding site [chemical binding]; other site 376686009269 THF binding site; other site 376686009270 zinc-binding site [ion binding]; other site 376686009271 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 376686009272 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686009273 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 376686009274 Major Facilitator Superfamily; Region: MFS_1; pfam07690 376686009275 putative substrate translocation pore; other site 376686009276 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 376686009277 Active site serine [active] 376686009278 Cupin domain; Region: Cupin_2; cl09118 376686009279 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 376686009280 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686009281 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 376686009282 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 376686009283 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 376686009284 Helix-turn-helix domains; Region: HTH; cl00088 376686009285 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 376686009286 classical (c) SDRs; Region: SDR_c; cd05233 376686009287 NAD(P) binding site [chemical binding]; other site 376686009288 active site 376686009289 Helix-turn-helix domains; Region: HTH; cl00088 376686009290 short chain dehydrogenase; Provisional; Region: PRK06523 376686009291 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686009292 NAD(P) binding site [chemical binding]; other site 376686009293 active site 376686009294 polyphosphate kinase; Provisional; Region: PRK05443 376686009295 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 376686009296 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 376686009297 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 376686009298 domain interface [polypeptide binding]; other site 376686009299 active site 376686009300 catalytic site [active] 376686009301 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 376686009302 domain interface [polypeptide binding]; other site 376686009303 active site 376686009304 catalytic site [active] 376686009305 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 376686009306 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; cd00136 376686009307 C-terminal processing peptidase-like; serine protease family S41; Region: Peptidase_S41_CPP_like; cd07561 376686009308 Catalytic dyad [active] 376686009309 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686009310 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686009311 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 376686009312 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 376686009313 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 376686009314 FecR protein; Region: FecR; pfam04773 376686009315 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 376686009316 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 376686009317 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686009318 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 376686009319 DNA binding residues [nucleotide binding] 376686009320 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 376686009321 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 376686009322 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 376686009323 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 376686009324 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686009325 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 376686009326 Two component regulator propeller; Region: Reg_prop; pfam07494 376686009327 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 376686009328 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686009329 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 376686009330 dimer interface [polypeptide binding]; other site 376686009331 phosphorylation site [posttranslational modification] 376686009332 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 376686009333 ATP binding site [chemical binding]; other site 376686009334 Mg2+ binding site [ion binding]; other site 376686009335 G-X-G motif; other site 376686009336 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 376686009337 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 376686009338 active site 376686009339 phosphorylation site [posttranslational modification] 376686009340 intermolecular recognition site; other site 376686009341 dimerization interface [polypeptide binding]; other site 376686009342 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686009343 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686009344 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686009345 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 376686009346 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 376686009347 starch binding outer membrane protein SusD; Region: SusD; cl15876 376686009348 starch binding outer membrane protein SusD; Region: SusD; cl15876 376686009349 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 376686009350 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 376686009351 Interdomain contacts; other site 376686009352 Cytokine receptor motif; other site 376686009353 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 376686009354 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 376686009355 active site 376686009356 catalytic residues [active] 376686009357 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 376686009358 putative symporter YagG; Provisional; Region: PRK09669 376686009359 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 376686009360 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686009361 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686009362 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686009363 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 376686009364 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 376686009365 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 376686009366 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 376686009367 dimer interface [polypeptide binding]; other site 376686009368 phosphorylation site [posttranslational modification] 376686009369 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 376686009370 ATP binding site [chemical binding]; other site 376686009371 Mg2+ binding site [ion binding]; other site 376686009372 G-X-G motif; other site 376686009373 Response regulator receiver domain; Region: Response_reg; pfam00072 376686009374 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 376686009375 active site 376686009376 phosphorylation site [posttranslational modification] 376686009377 intermolecular recognition site; other site 376686009378 dimerization interface [polypeptide binding]; other site 376686009379 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686009380 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686009381 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 376686009382 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 376686009383 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 376686009384 PA14 domain; Region: PA14; cl08459 376686009385 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 376686009386 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686009387 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 376686009388 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 376686009389 active site 376686009390 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 376686009391 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 376686009392 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 376686009393 Domain of unknown function (DUF303); Region: DUF303; pfam03629 376686009394 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 376686009395 Putative esterase; Region: Esterase; pfam00756 376686009396 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 376686009397 active site 376686009398 catalytic triad [active] 376686009399 oxyanion hole [active] 376686009400 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 376686009401 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 376686009402 inhibitor binding site; inhibition site 376686009403 active site 376686009404 starch binding outer membrane protein SusD; Region: SusD; cl15876 376686009405 starch binding outer membrane protein SusD; Region: SusD; cl15876 376686009406 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686009407 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686009408 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 376686009409 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 376686009410 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 376686009411 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 376686009412 PA14 domain; Region: PA14; cl08459 376686009413 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 376686009414 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686009415 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 376686009416 active site 376686009417 phosphorylation site [posttranslational modification] 376686009418 intermolecular recognition site; other site 376686009419 dimerization interface [polypeptide binding]; other site 376686009420 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 376686009421 putative proton transfer pathway, P2; other site 376686009422 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 376686009423 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686009424 NAD(P) binding site [chemical binding]; other site 376686009425 active site 376686009426 MEDS: MEthanogen/methylotroph, DcmR Sensory domain; Region: MEDS; pfam14417 376686009427 LytTr DNA-binding domain; Region: LytTR; cl04498 376686009428 Haem-binding domain; Region: Haem_bd; pfam14376 376686009429 oxidoreductase; Provisional; Region: PRK06196 376686009430 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 376686009431 putative NAD(P) binding site [chemical binding]; other site 376686009432 active site 376686009433 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686009434 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686009435 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 376686009436 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686009437 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 376686009438 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 376686009439 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 376686009440 dimer interface [polypeptide binding]; other site 376686009441 active site 376686009442 heme binding site [chemical binding]; other site 376686009443 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 376686009444 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686009445 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 376686009446 N-terminal plug; other site 376686009447 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 376686009448 ligand-binding site [chemical binding]; other site 376686009449 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 376686009450 dimerization interface [polypeptide binding]; other site 376686009451 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 376686009452 ATP binding site [chemical binding]; other site 376686009453 HupF/HypC family; Region: HupF_HypC; cl00394 376686009454 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686009455 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686009456 G4 box; other site 376686009457 G5 box; other site 376686009458 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 376686009459 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 376686009460 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 376686009461 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 376686009462 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 376686009463 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 376686009464 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 376686009465 putative substrate-binding site; other site 376686009466 nickel binding site [ion binding]; other site 376686009467 Acylphosphatase; Region: Acylphosphatase; cl00551 376686009468 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 376686009469 HypF finger; Region: zf-HYPF; pfam07503 376686009470 HypF finger; Region: zf-HYPF; pfam07503 376686009471 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 376686009472 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 376686009473 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 376686009474 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 376686009475 Hydrogenase formation hypA family; Region: HypD; cl12072 376686009476 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 376686009477 High-affinity nickel-transport protein; Region: NicO; cl00964 376686009478 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 376686009479 MgtC family; Region: MgtC; pfam02308 376686009480 Putative catalytic NodB homology domain of gellan lyase and similar proteins; Region: CE4_GLA_like_6s; cd10967 376686009481 putative active site [active] 376686009482 putative metal binding site [ion binding]; other site 376686009483 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 376686009484 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 376686009485 active site 376686009486 phosphorylation site [posttranslational modification] 376686009487 intermolecular recognition site; other site 376686009488 dimerization interface [polypeptide binding]; other site 376686009489 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 376686009490 DNA binding site [nucleotide binding] 376686009491 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686009492 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 376686009493 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 376686009494 dimer interface [polypeptide binding]; other site 376686009495 phosphorylation site [posttranslational modification] 376686009496 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 376686009497 ATP binding site [chemical binding]; other site 376686009498 Mg2+ binding site [ion binding]; other site 376686009499 G-X-G motif; other site 376686009500 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686009501 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 376686009502 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 376686009503 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 376686009504 DXD motif; other site 376686009505 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 376686009506 TPR motif; other site 376686009507 binding surface 376686009508 Response regulator receiver domain; Region: Response_reg; pfam00072 376686009509 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 376686009510 active site 376686009511 phosphorylation site [posttranslational modification] 376686009512 intermolecular recognition site; other site 376686009513 dimerization interface [polypeptide binding]; other site 376686009514 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 376686009515 GAF domain; Region: GAF; cl15785 376686009516 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 376686009517 dimer interface [polypeptide binding]; other site 376686009518 phosphorylation site [posttranslational modification] 376686009519 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 376686009520 ATP binding site [chemical binding]; other site 376686009521 Mg2+ binding site [ion binding]; other site 376686009522 G-X-G motif; other site 376686009523 Response regulator receiver domain; Region: Response_reg; pfam00072 376686009524 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 376686009525 active site 376686009526 phosphorylation site [posttranslational modification] 376686009527 intermolecular recognition site; other site 376686009528 dimerization interface [polypeptide binding]; other site 376686009529 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 376686009530 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 376686009531 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686009532 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686009533 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 376686009534 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 376686009535 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 376686009536 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 376686009537 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 376686009538 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 376686009539 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 376686009540 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 376686009541 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 376686009542 GAF domain; Region: GAF; cl15785 376686009543 Phytochrome region; Region: PHY; pfam00360 376686009544 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 376686009545 ATP binding site [chemical binding]; other site 376686009546 Mg2+ binding site [ion binding]; other site 376686009547 G-X-G motif; other site 376686009548 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 376686009549 heme binding pocket [chemical binding]; other site 376686009550 heme ligand [chemical binding]; other site 376686009551 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 376686009552 NAD binding site [chemical binding]; other site 376686009553 active site 376686009554 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 376686009555 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 376686009556 S-adenosylmethionine binding site [chemical binding]; other site 376686009557 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 376686009558 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 376686009559 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 376686009560 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 376686009561 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 376686009562 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 376686009563 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 376686009564 catalytic residues [active] 376686009565 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686009566 Secretin and TonB N terminus short domain; Region: STN; cl06624 376686009567 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686009568 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686009569 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 376686009570 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 376686009571 FecR protein; Region: FecR; pfam04773 376686009572 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 376686009573 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 376686009574 Tetratricopeptide repeat; Region: TPR_16; pfam13432 376686009575 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686009576 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686009577 ligand binding site [chemical binding]; other site 376686009578 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 376686009579 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 376686009580 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686009581 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686009582 VCBS repeat; Region: VCBS_repeat; TIGR01965 376686009583 VCBS repeat; Region: VCBS_repeat; TIGR01965 376686009584 VCBS repeat; Region: VCBS_repeat; TIGR01965 376686009585 VCBS repeat; Region: VCBS_repeat; TIGR01965 376686009586 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686009587 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 376686009588 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686009589 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 376686009590 ligand binding site [chemical binding]; other site 376686009591 flexible hinge region; other site 376686009592 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 376686009593 homotrimer interaction site [polypeptide binding]; other site 376686009594 putative active site [active] 376686009595 Helix-turn-helix domains; Region: HTH; cl00088 376686009596 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 376686009597 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686009598 NAD(P) binding site [chemical binding]; other site 376686009599 active site 376686009600 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 376686009601 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 376686009602 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 376686009603 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 376686009604 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 376686009605 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686009606 Walker A/P-loop; other site 376686009607 ATP binding site [chemical binding]; other site 376686009608 Q-loop/lid; other site 376686009609 ABC transporter signature motif; other site 376686009610 Walker B; other site 376686009611 D-loop; other site 376686009612 H-loop/switch region; other site 376686009613 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 376686009614 Helix-turn-helix domains; Region: HTH; cl00088 376686009615 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 376686009616 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 376686009617 putative substrate translocation pore; other site 376686009618 Glycosyl hydrolase families 32 and 68, which for the clan GH-J; Region: GH_J; cd08979 376686009619 active site 376686009620 sucrose-phosphate synthase, putative, glycosyltransferase domain; Region: sucr_P_syn_N; TIGR02472 376686009621 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 376686009622 putative ADP-binding pocket [chemical binding]; other site 376686009623 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 376686009624 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 376686009625 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686009626 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 376686009627 active site 376686009628 phosphorylation site [posttranslational modification] 376686009629 intermolecular recognition site; other site 376686009630 dimerization interface [polypeptide binding]; other site 376686009631 LytTr DNA-binding domain; Region: LytTR; cl04498 376686009632 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 376686009633 Histidine kinase; Region: His_kinase; pfam06580 376686009634 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5381 376686009635 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686009636 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 376686009637 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686009638 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686009639 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686009640 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686009641 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686009642 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686009643 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686009644 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686009645 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686009646 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686009647 S-layer domain [Cell envelope biogenesis, outer membrane]; Region: COG1361 376686009648 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686009649 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686009650 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686009651 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686009652 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686009653 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686009654 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686009655 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 376686009656 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686009657 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686009658 ligand binding site [chemical binding]; other site 376686009659 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 376686009660 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 376686009661 active site 376686009662 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686009663 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 376686009664 active site 376686009665 phosphorylation site [posttranslational modification] 376686009666 intermolecular recognition site; other site 376686009667 dimerization interface [polypeptide binding]; other site 376686009668 LytTr DNA-binding domain; Region: LytTR; cl04498 376686009669 Histidine kinase; Region: His_kinase; pfam06580 376686009670 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 376686009671 Mg2+ binding site [ion binding]; other site 376686009672 G-X-G motif; other site 376686009673 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 376686009674 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 376686009675 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 376686009676 NMT1-like family; Region: NMT1_2; cl15260 376686009677 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 376686009678 dimer interface [polypeptide binding]; other site 376686009679 conserved gate region; other site 376686009680 ABC-ATPase subunit interface; other site 376686009681 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 376686009682 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 376686009683 Walker A/P-loop; other site 376686009684 ATP binding site [chemical binding]; other site 376686009685 Q-loop/lid; other site 376686009686 ABC transporter signature motif; other site 376686009687 Walker B; other site 376686009688 D-loop; other site 376686009689 H-loop/switch region; other site 376686009690 NIL domain; Region: NIL; cl09633 376686009691 Cupin domain; Region: Cupin_2; cl09118 376686009692 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 376686009693 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 376686009694 putative NAD(P) binding site [chemical binding]; other site 376686009695 Helix-turn-helix domains; Region: HTH; cl00088 376686009696 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 376686009697 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 376686009698 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686009699 catalytic residue [active] 376686009700 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 376686009701 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 376686009702 catalytic residues [active] 376686009703 Nitronate monooxygenase; Region: NMO; pfam03060 376686009704 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 376686009705 FMN binding site [chemical binding]; other site 376686009706 substrate binding site [chemical binding]; other site 376686009707 putative catalytic residue [active] 376686009708 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 376686009709 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 376686009710 classical (c) SDRs; Region: SDR_c; cd05233 376686009711 NAD(P) binding site [chemical binding]; other site 376686009712 active site 376686009713 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 376686009714 active site 1 [active] 376686009715 dimer interface [polypeptide binding]; other site 376686009716 hexamer interface [polypeptide binding]; other site 376686009717 active site 2 [active] 376686009718 YceI-like domain; Region: YceI; cl01001 376686009719 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 376686009720 ligand binding site [chemical binding]; other site 376686009721 flexible hinge region; other site 376686009722 DoxX; Region: DoxX; cl00976 376686009723 short chain dehydrogenase; Provisional; Region: PRK08263 376686009724 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 376686009725 NADP binding site [chemical binding]; other site 376686009726 active site 376686009727 steroid binding site; other site 376686009728 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 376686009729 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686009730 two-component response regulator; Provisional; Region: PRK14084 376686009731 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 376686009732 active site 376686009733 phosphorylation site [posttranslational modification] 376686009734 intermolecular recognition site; other site 376686009735 dimerization interface [polypeptide binding]; other site 376686009736 LytTr DNA-binding domain; Region: LytTR; cl04498 376686009737 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 376686009738 Histidine kinase; Region: His_kinase; pfam06580 376686009739 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 376686009740 OsmC-like protein; Region: OsmC; cl00767 376686009741 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 376686009742 Cupin domain; Region: Cupin_2; cl09118 376686009743 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 376686009744 classical (c) SDRs; Region: SDR_c; cd05233 376686009745 NAD(P) binding site [chemical binding]; other site 376686009746 active site 376686009747 circadian clock protein KaiC; Reviewed; Region: PRK09302 376686009748 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686009749 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686009750 Walker A motif; other site 376686009751 Walker A motif; other site 376686009752 ATP binding site [chemical binding]; other site 376686009753 Walker B motif; other site 376686009754 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686009755 Walker A motif; other site 376686009756 ATP binding site [chemical binding]; other site 376686009757 Walker B motif; other site 376686009758 KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part...; Region: KaiB_like; cd02978 376686009759 tetramer interface [polypeptide binding]; other site 376686009760 dimer interface [polypeptide binding]; other site 376686009761 KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part...; Region: KaiB_like; cd02978 376686009762 tetramer interface [polypeptide binding]; other site 376686009763 dimer interface [polypeptide binding]; other site 376686009764 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 376686009765 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 376686009766 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 376686009767 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 376686009768 ATP binding site [chemical binding]; other site 376686009769 Mg2+ binding site [ion binding]; other site 376686009770 G-X-G motif; other site 376686009771 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 376686009772 active site 376686009773 phosphorylation site [posttranslational modification] 376686009774 intermolecular recognition site; other site 376686009775 dimerization interface [polypeptide binding]; other site 376686009776 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 376686009777 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 376686009778 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 376686009779 catalytic motif [active] 376686009780 Catalytic residue [active] 376686009781 OsmC-like protein; Region: OsmC; cl00767 376686009782 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 376686009783 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 376686009784 Transcriptional regulator [Transcription]; Region: LysR; COG0583 376686009785 Helix-turn-helix domains; Region: HTH; cl00088 376686009786 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 376686009787 dimerization interface [polypeptide binding]; other site 376686009788 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 376686009789 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 376686009790 FAD binding pocket [chemical binding]; other site 376686009791 FAD binding motif [chemical binding]; other site 376686009792 phosphate binding motif [ion binding]; other site 376686009793 NAD binding pocket [chemical binding]; other site 376686009794 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 376686009795 Cupin domain; Region: Cupin_2; cl09118 376686009796 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686009797 Helix-turn-helix domains; Region: HTH; cl00088 376686009798 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 376686009799 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686009800 Coenzyme A binding pocket [chemical binding]; other site 376686009801 Helix-turn-helix domains; Region: HTH; cl00088 376686009802 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 376686009803 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686009804 Coenzyme A binding pocket [chemical binding]; other site 376686009805 EamA-like transporter family; Region: EamA; cl01037 376686009806 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686009807 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 376686009808 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 376686009809 N-terminal plug; other site 376686009810 ligand-binding site [chemical binding]; other site 376686009811 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 376686009812 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 376686009813 Transcriptional regulators [Transcription]; Region: PurR; COG1609 376686009814 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 376686009815 DNA binding site [nucleotide binding] 376686009816 domain linker motif; other site 376686009817 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 376686009818 dimerization interface [polypeptide binding]; other site 376686009819 ligand binding site [chemical binding]; other site 376686009820 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 376686009821 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 376686009822 putative substrate binding site [chemical binding]; other site 376686009823 putative ATP binding site [chemical binding]; other site 376686009824 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 376686009825 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 376686009826 putative substrate translocation pore; other site 376686009827 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 376686009828 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 376686009829 AP (apurinic/apyrimidinic) site pocket; other site 376686009830 DNA interaction; other site 376686009831 Metal-binding active site; metal-binding site 376686009832 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 376686009833 Phage Tail Collar Domain; Region: Collar; pfam07484 376686009834 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 376686009835 Phage Tail Collar Domain; Region: Collar; pfam07484 376686009836 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 376686009837 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 376686009838 Phage Tail Collar Domain; Region: Collar; pfam07484 376686009839 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 376686009840 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 376686009841 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_5; cd08823 376686009842 putative active site [active] 376686009843 putative substrate binding site [chemical binding]; other site 376686009844 putative cosubstrate binding site; other site 376686009845 catalytic site [active] 376686009846 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 376686009847 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686009848 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686009849 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686009850 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686009851 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686009852 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686009853 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 376686009854 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 376686009855 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 376686009856 ligand binding site [chemical binding]; other site 376686009857 flexible hinge region; other site 376686009858 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 376686009859 putative switch regulator; other site 376686009860 non-specific DNA interactions [nucleotide binding]; other site 376686009861 DNA binding site [nucleotide binding] 376686009862 sequence specific DNA binding site [nucleotide binding]; other site 376686009863 putative cAMP binding site [chemical binding]; other site 376686009864 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 376686009865 heme-binding site [chemical binding]; other site 376686009866 Quinolinate synthetase A protein; Region: NadA; cl00420 376686009867 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686009868 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 376686009869 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 376686009870 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 376686009871 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 376686009872 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 376686009873 ATP cone domain; Region: ATP-cone; pfam03477 376686009874 Class III ribonucleotide reductase; Region: RNR_III; cd01675 376686009875 effector binding site; other site 376686009876 active site 376686009877 Zn binding site [ion binding]; other site 376686009878 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 376686009879 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 376686009880 FeS/SAM binding site; other site 376686009881 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 376686009882 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 376686009883 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 376686009884 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 376686009885 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 376686009886 ligand binding site [chemical binding]; other site 376686009887 flexible hinge region; other site 376686009888 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 376686009889 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 376686009890 Class I ribonucleotide reductase; Region: RNR_I; cd01679 376686009891 active site 376686009892 dimer interface [polypeptide binding]; other site 376686009893 catalytic residues [active] 376686009894 effector binding site; other site 376686009895 R2 peptide binding site; other site 376686009896 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 376686009897 dimer interface [polypeptide binding]; other site 376686009898 putative radical transfer pathway; other site 376686009899 diiron center [ion binding]; other site 376686009900 tyrosyl radical; other site 376686009901 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 376686009902 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 376686009903 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 376686009904 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 376686009905 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 376686009906 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 376686009907 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 376686009908 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686009909 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 376686009910 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 376686009911 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 376686009912 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 376686009913 FAD binding pocket [chemical binding]; other site 376686009914 conserved FAD binding motif [chemical binding]; other site 376686009915 phosphate binding motif [ion binding]; other site 376686009916 beta-alpha-beta structure motif; other site 376686009917 NAD binding pocket [chemical binding]; other site 376686009918 ApbE family; Region: ApbE; cl00643 376686009919 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686009920 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686009921 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 376686009922 N-terminal plug; other site 376686009923 ligand-binding site [chemical binding]; other site 376686009924 Domain of unknown function (DUF4272); Region: DUF4272; pfam14094 376686009925 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 376686009926 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 376686009927 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 376686009928 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 376686009929 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686009930 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 376686009931 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 376686009932 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 376686009933 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 376686009934 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 376686009935 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 376686009936 catalytic site [active] 376686009937 BNR repeat-like domain; Region: BNR_2; pfam13088 376686009938 Asp-box motif; other site 376686009939 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 376686009940 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 376686009941 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 376686009942 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 376686009943 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 376686009944 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 376686009945 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686009946 BNR repeat-like domain; Region: BNR_2; pfam13088 376686009947 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686009948 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686009949 active site 376686009950 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 376686009951 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 376686009952 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 376686009953 Putative collagen-binding domain of a collagenase; Region: Collagen_bind_2; pfam12904 376686009954 Protein of unknown function (DUF3826); Region: DUF3826; pfam12875 376686009955 Pectate lyase; Region: Pec_lyase_C; cl01593 376686009956 starch binding outer membrane protein SusD; Region: SusD; cl15876 376686009957 starch binding outer membrane protein SusD; Region: SusD; cl15876 376686009958 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686009959 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686009960 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 376686009961 Pectinesterase; Region: Pectinesterase; cl01911 376686009962 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 376686009963 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 376686009964 Domain of unknown function (DUF303); Region: DUF303; pfam03629 376686009965 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 376686009966 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 376686009967 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 376686009968 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 376686009969 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 376686009970 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 376686009971 Domain of unknown function (DUF377); Region: DUF377; pfam04041 376686009972 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686009973 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686009974 active site 376686009975 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686009976 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 376686009977 Cupin domain; Region: Cupin_2; cl09118 376686009978 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686009979 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686009980 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 376686009981 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 376686009982 putative substrate translocation pore; other site 376686009983 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 376686009984 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 376686009985 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 376686009986 non-specific DNA binding site [nucleotide binding]; other site 376686009987 salt bridge; other site 376686009988 sequence-specific DNA binding site [nucleotide binding]; other site 376686009989 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 376686009990 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 376686009991 putative transporter; Provisional; Region: PRK10484 376686009992 Sodium:solute symporter family; Region: SSF; cl00456 376686009993 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 376686009994 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686009995 Right handed beta helix region; Region: Beta_helix; pfam13229 376686009996 Domain of unknown function (DUF718); Region: DUF718; cl01281 376686009997 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 376686009998 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 376686009999 Pectic acid lyase; Region: Pec_lyase; pfam09492 376686010000 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 376686010001 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 376686010002 active site 376686010003 short chain dehydrogenase; Provisional; Region: PRK08628 376686010004 classical (c) SDRs; Region: SDR_c; cd05233 376686010005 NAD(P) binding site [chemical binding]; other site 376686010006 active site 376686010007 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 376686010008 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 376686010009 putative NAD(P) binding site [chemical binding]; other site 376686010010 catalytic Zn binding site [ion binding]; other site 376686010011 structural Zn binding site [ion binding]; other site 376686010012 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 376686010013 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 376686010014 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 376686010015 classical (c) SDRs; Region: SDR_c; cd05233 376686010016 NAD(P) binding site [chemical binding]; other site 376686010017 active site 376686010018 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 376686010019 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 376686010020 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 376686010021 CoA-transferase family III; Region: CoA_transf_3; pfam02515 376686010022 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 376686010023 CoA-transferase family III; Region: CoA_transf_3; pfam02515 376686010024 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 376686010025 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 376686010026 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 376686010027 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686010028 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 376686010029 active site 2 [active] 376686010030 active site 1 [active] 376686010031 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 376686010032 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 376686010033 putative substrate translocation pore; other site 376686010034 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 376686010035 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 376686010036 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686010037 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 376686010038 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 376686010039 Histidine kinase; Region: His_kinase; pfam06580 376686010040 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 376686010041 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686010042 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 376686010043 active site 376686010044 phosphorylation site [posttranslational modification] 376686010045 intermolecular recognition site; other site 376686010046 dimerization interface [polypeptide binding]; other site 376686010047 LytTr DNA-binding domain; Region: LytTR; cl04498 376686010048 Domain of Unknown Function with PDB structure (DUF3861); Region: DUF3861; pfam12977 376686010049 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686010050 active site 376686010051 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 376686010052 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 376686010053 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 376686010054 DNA-binding site [nucleotide binding]; DNA binding site 376686010055 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 376686010056 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686010057 homodimer interface [polypeptide binding]; other site 376686010058 catalytic residue [active] 376686010059 Helix-turn-helix domains; Region: HTH; cl00088 376686010060 Domain of unknown function (DUF2024); Region: DUF2024; pfam09630 376686010061 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 376686010062 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 376686010063 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 376686010064 catalytic residue [active] 376686010065 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 376686010066 Walker A motif; other site 376686010067 ATP binding site [chemical binding]; other site 376686010068 Walker B motif; other site 376686010069 arginine finger; other site 376686010070 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 376686010071 putative catalytic residue [active] 376686010072 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 376686010073 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 376686010074 catalytic residues [active] 376686010075 DKNYY family; Region: DKNYY; pfam13644 376686010076 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 376686010077 Transposase IS200 like; Region: Y1_Tnp; cl00848 376686010078 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 376686010079 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 376686010080 Helix-turn-helix domains; Region: HTH; cl00088 376686010081 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 376686010082 Thioredoxin; Region: Thioredoxin_5; pfam13743 376686010083 catalytic residues [active] 376686010084 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 376686010085 Domain of unknown function (DUF1877); Region: DUF1877; pfam08974 376686010086 Competence-damaged protein; Region: CinA; cl00666 376686010087 PrgI family protein; Region: PrgI; pfam12666 376686010088 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 376686010089 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 376686010090 D-arabinose dehydrogenase; Region: arabinose_DH_like; cd05284 376686010091 NAD binding site [chemical binding]; other site 376686010092 substrate binding site [chemical binding]; other site 376686010093 catalytic Zn binding site [ion binding]; other site 376686010094 structural Zn binding site [ion binding]; other site 376686010095 starch binding outer membrane protein SusD; Region: SusD; cl15876 376686010096 starch binding outer membrane protein SusD; Region: SusD; cl15876 376686010097 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686010098 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686010099 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 376686010100 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 376686010101 FecR protein; Region: FecR; pfam04773 376686010102 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 376686010103 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 376686010104 DNA binding residues [nucleotide binding] 376686010105 Catalytic domain of Streptomyces antibioticus phosphatidylinositol-specific phospholipase C1-like proteins; Region: PI-PLCc_SaPLC1_like; cd08589 376686010106 putative active site [active] 376686010107 catalytic site [active] 376686010108 putative metal binding site [ion binding]; other site 376686010109 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 376686010110 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 376686010111 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 376686010112 Beta/Gamma crystallin; Region: Crystall; cl02528 376686010113 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 376686010114 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 376686010115 Carbohydrate Binding Module 6 (CBM6); appended to glycoside hydrolase (GH) domains, including GH5 (cellulase); Region: CBM6_cellulase-like; cd04080 376686010116 Ca binding site [ion binding]; other site 376686010117 ligand binding site I [chemical binding]; other site 376686010118 homodimer interface [polypeptide binding]; other site 376686010119 ligand binding site II [chemical binding]; other site 376686010120 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686010121 Glyco_18 domain; Region: Glyco_18; smart00636 376686010122 The Bacteroides thetaiotaomicron protein represented by pdb structure 3CO4 is an uncharacterized bacterial member of the family 18 glycosyl hydrolases with homologs found in Flavobacterium, Stigmatella, and Pseudomonas; Region: GH18_3CO4_chitinase; cd06545 376686010123 putative active site [active] 376686010124 Carbohydrate Binding Module 6 (CBM6); appended to glycoside hydrolase (GH) domains, including GH5 (cellulase); Region: CBM6_cellulase-like; cd04080 376686010125 Ca binding site [ion binding]; other site 376686010126 ligand binding site I [chemical binding]; other site 376686010127 homodimer interface [polypeptide binding]; other site 376686010128 ligand binding site II [chemical binding]; other site 376686010129 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686010130 glycosyl hydrolase 64 family; Region: GH64-like; cd09214 376686010131 substrate binding pocket [chemical binding]; other site 376686010132 catalytic residues [active] 376686010133 Beta/Gamma crystallin; Region: Crystall; cl02528 376686010134 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 376686010135 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 376686010136 putative sugar binding sites [chemical binding]; other site 376686010137 Q-X-W motif; other site 376686010138 Carbohydrate Binding Module 6 (CBM6); appended to glycoside hydrolase (GH) domains, including GH5 (cellulase); Region: CBM6_cellulase-like; cd04080 376686010139 Ca binding site [ion binding]; other site 376686010140 ligand binding site I [chemical binding]; other site 376686010141 homodimer interface [polypeptide binding]; other site 376686010142 ligand binding site II [chemical binding]; other site 376686010143 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686010144 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 376686010145 active site 376686010146 catalytic residues [active] 376686010147 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 376686010148 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 376686010149 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686010150 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 376686010151 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 376686010152 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 376686010153 Helix-turn-helix domains; Region: HTH; cl00088 376686010154 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 376686010155 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 376686010156 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 376686010157 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 376686010158 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 376686010159 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 376686010160 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 376686010161 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686010162 Zn binding site [ion binding]; other site 376686010163 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 376686010164 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686010165 Zn binding site [ion binding]; other site 376686010166 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 376686010167 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 376686010168 motif II; other site 376686010169 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_5; cd04662 376686010170 nudix motif; other site 376686010171 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 376686010172 DNA binding site [nucleotide binding] 376686010173 domain linker motif; other site 376686010174 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 376686010175 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 376686010176 ligand binding site [chemical binding]; other site 376686010177 Domain of unknown function (DUF386); Region: DUF386; cl01047 376686010178 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686010179 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 376686010180 NAD(P) binding site [chemical binding]; other site 376686010181 active site 376686010182 mannonate dehydratase; Provisional; Region: PRK03906 376686010183 mannonate dehydratase; Region: uxuA; TIGR00695 376686010184 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 376686010185 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 376686010186 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 376686010187 dimer interface [polypeptide binding]; other site 376686010188 phosphorylation site [posttranslational modification] 376686010189 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 376686010190 ATP binding site [chemical binding]; other site 376686010191 Mg2+ binding site [ion binding]; other site 376686010192 G-X-G motif; other site 376686010193 Response regulator receiver domain; Region: Response_reg; pfam00072 376686010194 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 376686010195 active site 376686010196 phosphorylation site [posttranslational modification] 376686010197 intermolecular recognition site; other site 376686010198 dimerization interface [polypeptide binding]; other site 376686010199 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686010200 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686010201 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686010202 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686010203 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 376686010204 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686010205 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 376686010206 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 376686010207 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 376686010208 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 376686010209 beta-D-glucuronidase; Provisional; Region: PRK10150 376686010210 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 376686010211 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 376686010212 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 376686010213 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 376686010214 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 376686010215 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 376686010216 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 376686010217 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 376686010218 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 376686010219 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 376686010220 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 376686010221 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 376686010222 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 376686010223 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 376686010224 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686010225 catalytic residue [active] 376686010226 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 376686010227 Ligand binding site; other site 376686010228 metal-binding site 376686010229 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 376686010230 XdhC Rossmann domain; Region: XdhC_C; pfam13478 376686010231 NlpE N-terminal domain; Region: NlpE; cl01138 376686010232 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 376686010233 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 376686010234 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 376686010235 non-specific DNA binding site [nucleotide binding]; other site 376686010236 salt bridge; other site 376686010237 sequence-specific DNA binding site [nucleotide binding]; other site 376686010238 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 376686010239 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 376686010240 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 376686010241 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 376686010242 Cysteine-rich domain; Region: CCG; pfam02754 376686010243 Cysteine-rich domain; Region: CCG; pfam02754 376686010244 Novosphingobium aromaticivorans carbohydrate kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_NaCK_like; cd07772 376686010245 N- and C-terminal domain interface [polypeptide binding]; other site 376686010246 putative active site [active] 376686010247 putative MgATP binding site [chemical binding]; other site 376686010248 catalytic site [active] 376686010249 metal binding site [ion binding]; metal-binding site 376686010250 putative carbohydrate binding site [chemical binding]; other site 376686010251 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 376686010252 L-rhamnose catabolism isomerase, Pseudomonas stutzeri subtype; Region: L_rham_iso_rhiz; TIGR02629 376686010253 short chain dehydrogenase; Validated; Region: PRK08324 376686010254 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 376686010255 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686010256 NAD(P) binding site [chemical binding]; other site 376686010257 active site 376686010258 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 376686010259 RhaT L-rhamnose-proton symporter family protein; Region: RhaT; TIGR00776 376686010260 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 376686010261 DNA-binding site [nucleotide binding]; DNA binding site 376686010262 Transcriptional regulators [Transcription]; Region: PurR; COG1609 376686010263 Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability; Region: PBP1_FucR_like; cd06276 376686010264 putative dimerization interface [polypeptide binding]; other site 376686010265 putative ligand binding site [chemical binding]; other site 376686010266 Uncharacterized conserved protein [Function unknown]; Region: COG5361 376686010267 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 376686010268 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 376686010269 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 376686010270 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 376686010271 DNA binding residues [nucleotide binding] 376686010272 dimerization interface [polypeptide binding]; other site 376686010273 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686010274 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 376686010275 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 376686010276 N-terminal plug; other site 376686010277 ligand-binding site [chemical binding]; other site 376686010278 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 376686010279 metal binding site [ion binding]; metal-binding site 376686010280 active site 376686010281 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 376686010282 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 376686010283 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 376686010284 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 376686010285 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 376686010286 active site 376686010287 catalytic triad [active] 376686010288 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 376686010289 active site 376686010290 catalytic triad [active] 376686010291 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 376686010292 Glycosyl hydrolases family 28; Region: Glyco_hydro_28; pfam00295 376686010293 Domain of unknown function (DUF718); Region: DUF718; cl01281 376686010294 Glycosyl hydrolase 43-like family consists of hypothetical proteins; Region: GH43_like_2; cd08994 376686010295 active site 376686010296 Domain of unknown function (DUF303); Region: DUF303; pfam03629 376686010297 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686010298 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686010299 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686010300 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 376686010301 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 376686010302 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 376686010303 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 376686010304 dimerization interface [polypeptide binding]; other site 376686010305 putative DNA binding site [nucleotide binding]; other site 376686010306 putative Zn2+ binding site [ion binding]; other site 376686010307 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 376686010308 active site 376686010309 nucleophile elbow; other site 376686010310 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 376686010311 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 376686010312 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 376686010313 active site 376686010314 Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842 376686010315 active site 376686010316 catalytic triad [active] 376686010317 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686010318 GAF domain; Region: GAF; cl15785 376686010319 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 376686010320 dimer interface [polypeptide binding]; other site 376686010321 phosphorylation site [posttranslational modification] 376686010322 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 376686010323 ATP binding site [chemical binding]; other site 376686010324 Mg2+ binding site [ion binding]; other site 376686010325 G-X-G motif; other site 376686010326 Response regulator receiver domain; Region: Response_reg; pfam00072 376686010327 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 376686010328 active site 376686010329 phosphorylation site [posttranslational modification] 376686010330 intermolecular recognition site; other site 376686010331 dimerization interface [polypeptide binding]; other site 376686010332 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 376686010333 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 376686010334 NAD(P) binding site [chemical binding]; other site 376686010335 catalytic residues [active] 376686010336 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686010337 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 376686010338 active site 376686010339 catalytic triad [active] 376686010340 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 376686010341 Glycosyl hydrolases family 28; Region: Glyco_hydro_28; pfam00295 376686010342 Pectic acid lyase; Region: Pec_lyase; pfam09492 376686010343 Pectinesterase; Region: Pectinesterase; cl01911 376686010344 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 376686010345 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 376686010346 active site 376686010347 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 376686010348 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 376686010349 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 376686010350 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 376686010351 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 376686010352 substrate binding pocket [chemical binding]; other site 376686010353 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 376686010354 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686010355 starch binding outer membrane protein SusD; Region: SusD; cl15876 376686010356 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686010357 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686010358 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 376686010359 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 376686010360 Transcriptional regulators [Transcription]; Region: PurR; COG1609 376686010361 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 376686010362 DNA binding site [nucleotide binding] 376686010363 domain linker motif; other site 376686010364 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 376686010365 dimerization interface [polypeptide binding]; other site 376686010366 ligand binding site [chemical binding]; other site 376686010367 SAF domain; Region: SAF; cl00555 376686010368 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 376686010369 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 376686010370 altronate oxidoreductase; Provisional; Region: PRK03643 376686010371 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 376686010372 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 376686010373 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 376686010374 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 376686010375 active site 376686010376 intersubunit interface [polypeptide binding]; other site 376686010377 catalytic residue [active] 376686010378 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 376686010379 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 376686010380 substrate binding site [chemical binding]; other site 376686010381 ATP binding site [chemical binding]; other site 376686010382 Glucuronate isomerase; Region: UxaC; cl00829 376686010383 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 376686010384 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 376686010385 NADP binding site [chemical binding]; other site 376686010386 homodimer interface [polypeptide binding]; other site 376686010387 active site 376686010388 KduI/IolB family; Region: KduI; cl01508 376686010389 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 376686010390 putative substrate translocation pore; other site 376686010391 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 376686010392 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 376686010393 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 376686010394 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 376686010395 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 376686010396 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 376686010397 Domain of unknown function (DUF4374); Region: DUF4374; pfam14298 376686010398 Domain of unknown function (DUF4374); Region: DUF4374; pfam14298 376686010399 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686010400 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 376686010401 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 376686010402 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 376686010403 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686010404 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 376686010405 Isochorismatase family; Region: Isochorismatase; pfam00857 376686010406 catalytic triad [active] 376686010407 dimer interface [polypeptide binding]; other site 376686010408 conserved cis-peptide bond; other site 376686010409 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 376686010410 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 376686010411 active site 376686010412 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 376686010413 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 376686010414 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 376686010415 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686010416 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686010417 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 376686010418 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686010419 NAD(P) binding site [chemical binding]; other site 376686010420 active site 376686010421 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 376686010422 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686010423 NAD(P) binding site [chemical binding]; other site 376686010424 active site 376686010425 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 376686010426 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686010427 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 376686010428 active site 376686010429 phosphorylation site [posttranslational modification] 376686010430 intermolecular recognition site; other site 376686010431 dimerization interface [polypeptide binding]; other site 376686010432 LytTr DNA-binding domain; Region: LytTR; cl04498 376686010433 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 376686010434 Histidine kinase; Region: His_kinase; pfam06580 376686010435 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 376686010436 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 376686010437 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686010438 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 376686010439 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 376686010440 intracellular protease, PfpI family; Region: PfpI; TIGR01382 376686010441 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 376686010442 proposed catalytic triad [active] 376686010443 conserved cys residue [active] 376686010444 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 376686010445 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 376686010446 active site 376686010447 phosphorylation site [posttranslational modification] 376686010448 intermolecular recognition site; other site 376686010449 dimerization interface [polypeptide binding]; other site 376686010450 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 376686010451 DNA binding site [nucleotide binding] 376686010452 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686010453 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 376686010454 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 376686010455 dimer interface [polypeptide binding]; other site 376686010456 phosphorylation site [posttranslational modification] 376686010457 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 376686010458 ATP binding site [chemical binding]; other site 376686010459 Mg2+ binding site [ion binding]; other site 376686010460 G-X-G motif; other site 376686010461 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 376686010462 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686010463 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 376686010464 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 376686010465 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 376686010466 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 376686010467 mannose-1-phosphate guanyltransferase; Provisional; Region: cpsB; PRK15460 376686010468 Cupin domain; Region: Cupin_2; cl09118 376686010469 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 376686010470 Helix-turn-helix domains; Region: HTH; cl00088 376686010471 WHG domain; Region: WHG; pfam13305 376686010472 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686010473 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 376686010474 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 376686010475 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 376686010476 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 376686010477 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 376686010478 ligand binding site [chemical binding]; other site 376686010479 flexible hinge region; other site 376686010480 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 376686010481 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686010482 Coenzyme A binding pocket [chemical binding]; other site 376686010483 DoxX; Region: DoxX; cl00976 376686010484 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 376686010485 putative dimer interface [polypeptide binding]; other site 376686010486 DinB superfamily; Region: DinB_2; pfam12867 376686010487 Protein of unknown function (DUF1440); Region: DUF1440; cl01380 376686010488 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686010489 active site 376686010490 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 376686010491 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 376686010492 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 376686010493 Helix-turn-helix domains; Region: HTH; cl00088 376686010494 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 376686010495 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 376686010496 dimer interface [polypeptide binding]; other site 376686010497 active site 376686010498 Permease; Region: Permease; cl00510 376686010499 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 376686010500 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 376686010501 Walker A/P-loop; other site 376686010502 ATP binding site [chemical binding]; other site 376686010503 Q-loop/lid; other site 376686010504 ABC transporter signature motif; other site 376686010505 Walker B; other site 376686010506 D-loop; other site 376686010507 H-loop/switch region; other site 376686010508 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 376686010509 mce related protein; Region: MCE; pfam02470 376686010510 AsmA family; Region: AsmA; pfam05170 376686010511 AsmA-like C-terminal region; Region: AsmA_2; cl15864 376686010512 Low affinity iron permease; Region: Iron_permease; cl12096 376686010513 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 376686010514 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686010515 Transcriptional regulators [Transcription]; Region: MarR; COG1846 376686010516 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 376686010517 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686010518 Coenzyme A binding pocket [chemical binding]; other site 376686010519 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 376686010520 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686010521 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 376686010522 putative active site [active] 376686010523 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 376686010524 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686010525 starch binding outer membrane protein SusD; Region: SusD; cl15876 376686010526 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686010527 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686010528 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 376686010529 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 376686010530 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 376686010531 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 376686010532 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 376686010533 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 376686010534 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 376686010535 NAD(P) binding site [chemical binding]; other site 376686010536 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 376686010537 hypothetical protein; Provisional; Region: PRK10396 376686010538 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 376686010539 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 376686010540 metal ion-dependent adhesion site (MIDAS); other site 376686010541 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 376686010542 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 376686010543 HSP70 interaction site [polypeptide binding]; other site 376686010544 KTSC domain; Region: KTSC; pfam13619 376686010545 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 376686010546 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 376686010547 DNA binding site [nucleotide binding] 376686010548 Int/Topo IB signature motif; other site 376686010549 active site 376686010550 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 376686010551 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 376686010552 Bacteroides conjugative transposon TraM protein; Region: Bac_Flav_CT_M; TIGR03779 376686010553 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 376686010554 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 376686010555 Bacteroides conjugative transposon TraJ protein; Region: Bac_Flav_CT_J; TIGR03782 376686010556 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 376686010557 Domain of unknown function, B. Theta Gene description (DUF3875); Region: DUF3875; pfam12991 376686010558 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 376686010559 Domain of unknown function (DUF4133); Region: DUF4133; pfam13571 376686010560 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 376686010561 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686010562 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686010563 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686010564 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686010565 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 376686010566 non-specific DNA binding site [nucleotide binding]; other site 376686010567 salt bridge; other site 376686010568 sequence-specific DNA binding site [nucleotide binding]; other site 376686010569 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686010570 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686010571 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 376686010572 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686010573 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 376686010574 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 376686010575 DoxX; Region: DoxX; cl00976 376686010576 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 376686010577 YWFCY protein; Region: YWFCY; pfam14293 376686010578 AAA-like domain; Region: AAA_10; pfam12846 376686010579 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686010580 Walker A motif; other site 376686010581 ATP binding site [chemical binding]; other site 376686010582 Walker B motif; other site 376686010583 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 376686010584 Protein of unknown function (DUF1810); Region: DUF1810; cl02370 376686010585 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 376686010586 dimer interface [polypeptide binding]; other site 376686010587 ssDNA binding site [nucleotide binding]; other site 376686010588 tetramer (dimer of dimers) interface [polypeptide binding]; other site 376686010589 PcfK-like protein; Region: PcfK; pfam14058 376686010590 PcfJ-like protein; Region: PcfJ; pfam14284 376686010591 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 376686010592 MPN+ (JAMM) motif; other site 376686010593 Zinc-binding site [ion binding]; other site 376686010594 Protein of unknown function (DUF3024); Region: DUF3024; pfam11225 376686010595 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 376686010596 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 376686010597 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 376686010598 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 376686010599 HsdM N-terminal domain; Region: HsdM_N; pfam12161 376686010600 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686010601 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 376686010602 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 376686010603 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 376686010604 AAA domain; Region: AAA_13; pfam13166 376686010605 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 376686010606 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 376686010607 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 376686010608 ATP binding site [chemical binding]; other site 376686010609 putative Mg++ binding site [ion binding]; other site 376686010610 Type I restriction and modification enzyme - subunit R C terminal; Region: EcoR124_C; pfam12008 376686010611 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 376686010612 Uncharacterized conserved protein [Function unknown]; Region: COG3586 376686010613 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 376686010614 ATP binding site [chemical binding]; other site 376686010615 G-X-G motif; other site 376686010616 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 376686010617 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 376686010618 Cl- selectivity filter; other site 376686010619 Cl- binding residues [ion binding]; other site 376686010620 pore gating glutamate residue; other site 376686010621 dimer interface [polypeptide binding]; other site 376686010622 FOG: CBS domain [General function prediction only]; Region: COG0517 376686010623 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 376686010624 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_4; cd06254 376686010625 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 376686010626 putative active site [active] 376686010627 Zn binding site [ion binding]; other site 376686010628 Domain of unknown function (DUF389); Region: DUF389; cl00781 376686010629 Autophagy protein 16 (ATG16); Region: ATG16; pfam08614 376686010630 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 376686010631 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686010632 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 376686010633 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 376686010634 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 376686010635 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 376686010636 oxidoreductase; Provisional; Region: PRK06196 376686010637 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 376686010638 putative NAD(P) binding site [chemical binding]; other site 376686010639 active site 376686010640 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686010641 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 376686010642 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 376686010643 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 376686010644 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 376686010645 putative dimer interface [polypeptide binding]; other site 376686010646 Chromate transporter; Region: Chromate_transp; pfam02417 376686010647 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 376686010648 Chromate transporter; Region: Chromate_transp; pfam02417 376686010649 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 376686010650 putative DNA binding site [nucleotide binding]; other site 376686010651 dimerization interface [polypeptide binding]; other site 376686010652 putative Zn2+ binding site [ion binding]; other site 376686010653 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 376686010654 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686010655 Coenzyme A binding pocket [chemical binding]; other site 376686010656 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 376686010657 Low molecular weight phosphatase family; Region: LMWPc; cl00105 376686010658 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 376686010659 Membrane transport protein; Region: Mem_trans; cl09117 376686010660 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 376686010661 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 376686010662 active site 376686010663 metal binding site [ion binding]; metal-binding site 376686010664 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 376686010665 RNA polymerase sigma factor SigZ; Provisional; Region: PRK09637 376686010666 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686010667 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 376686010668 Helix-turn-helix domains; Region: HTH; cl00088 376686010669 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 376686010670 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 376686010671 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 376686010672 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 376686010673 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 376686010674 active site 376686010675 catalytic site [active] 376686010676 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 376686010677 Glycosyl hydrolase family 66; Region: Glyco_hydro_66; pfam13199 376686010678 SusE outer membrane protein; Region: SusE; pfam14292 376686010679 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686010680 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686010681 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686010682 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 376686010683 alpha-galactosidase; Region: PLN02229 376686010684 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 376686010685 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 376686010686 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686010687 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 376686010688 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686010689 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 376686010690 folate binding site [chemical binding]; other site 376686010691 NADP+ binding site [chemical binding]; other site 376686010692 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 376686010693 NADH(P)-binding; Region: NAD_binding_10; pfam13460 376686010694 NAD binding site [chemical binding]; other site 376686010695 active site 376686010696 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686010697 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686010698 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 376686010699 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686010700 NAD(P) binding site [chemical binding]; other site 376686010701 active site 376686010702 short chain dehydrogenase; Provisional; Region: PRK12937 376686010703 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 376686010704 NADP binding site [chemical binding]; other site 376686010705 homodimer interface [polypeptide binding]; other site 376686010706 active site 376686010707 substrate binding site [chemical binding]; other site 376686010708 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 376686010709 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 376686010710 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686010711 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 376686010712 ligand binding site [chemical binding]; other site 376686010713 flexible hinge region; other site 376686010714 Helix-turn-helix domains; Region: HTH; cl00088 376686010715 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 376686010716 lipoyl attachment site [posttranslational modification]; other site 376686010717 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 376686010718 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 376686010719 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 376686010720 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 376686010721 lipoyl attachment site [posttranslational modification]; other site 376686010722 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 376686010723 S-adenosylmethionine binding site [chemical binding]; other site 376686010724 Protein of unknown function (DUF983); Region: DUF983; cl02211 376686010725 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; smart00782 376686010726 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 376686010727 PhnA protein; Region: PhnA; pfam03831 376686010728 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 376686010729 S-adenosylmethionine binding site [chemical binding]; other site 376686010730 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 376686010731 active site 376686010732 dimerization interface [polypeptide binding]; other site 376686010733 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 376686010734 dimer interface [polypeptide binding]; other site 376686010735 catalytic triad [active] 376686010736 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 376686010737 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 376686010738 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686010739 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 376686010740 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 376686010741 Sulfatase; Region: Sulfatase; cl10460 376686010742 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 376686010743 ApbE family; Region: ApbE; cl00643 376686010744 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 376686010745 PAP2_like_5 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_5; cd03394 376686010746 active site 376686010747 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 376686010748 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 376686010749 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 376686010750 Zn2+ binding site [ion binding]; other site 376686010751 Mg2+ binding site [ion binding]; other site 376686010752 RteC protein; Region: RteC; pfam09357 376686010753 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 376686010754 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 376686010755 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 376686010756 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 376686010757 motif II; other site 376686010758 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 376686010759 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 376686010760 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686010761 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686010762 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686010763 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 376686010764 PAS fold; Region: PAS_4; pfam08448 376686010765 PAS fold; Region: PAS_3; pfam08447 376686010766 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 376686010767 dimer interface [polypeptide binding]; other site 376686010768 phosphorylation site [posttranslational modification] 376686010769 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 376686010770 ATP binding site [chemical binding]; other site 376686010771 Mg2+ binding site [ion binding]; other site 376686010772 G-X-G motif; other site 376686010773 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 376686010774 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 376686010775 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 376686010776 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686010777 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 376686010778 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 376686010779 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 376686010780 dimer interface [polypeptide binding]; other site 376686010781 FMN binding site [chemical binding]; other site 376686010782 starch binding outer membrane protein SusD; Region: SusD; cl15876 376686010783 starch binding outer membrane protein SusD; Region: SusD; cl15876 376686010784 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686010785 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686010786 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 376686010787 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 376686010788 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 376686010789 active site 376686010790 catalytic site [active] 376686010791 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686010792 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 376686010793 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 376686010794 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 376686010795 Histidine kinase; Region: His_kinase; pfam06580 376686010796 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686010797 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 376686010798 active site 376686010799 phosphorylation site [posttranslational modification] 376686010800 intermolecular recognition site; other site 376686010801 dimerization interface [polypeptide binding]; other site 376686010802 LytTr DNA-binding domain; Region: LytTR; cl04498 376686010803 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686010804 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 376686010805 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 376686010806 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686010807 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686010808 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686010809 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 376686010810 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 376686010811 Protein of unknown function (DUF541); Region: SIMPL; cl01077 376686010812 Rhomboid family; Region: Rhomboid; cl11446 376686010813 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 376686010814 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 376686010815 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 376686010816 putative acyl-acceptor binding pocket; other site 376686010817 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 376686010818 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 376686010819 active site 376686010820 substrate binding site [chemical binding]; other site 376686010821 metal binding site [ion binding]; metal-binding site 376686010822 Protein of unknown function, DUF479; Region: DUF479; cl01203 376686010823 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 376686010824 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 376686010825 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 376686010826 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 376686010827 Cl- selectivity filter; other site 376686010828 Cl- binding residues [ion binding]; other site 376686010829 pore gating glutamate residue; other site 376686010830 dimer interface [polypeptide binding]; other site 376686010831 FOG: CBS domain [General function prediction only]; Region: COG0517 376686010832 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 376686010833 Fic family protein [Function unknown]; Region: COG3177 376686010834 Fic/DOC family; Region: Fic; cl00960 376686010835 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 376686010836 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 376686010837 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 376686010838 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 376686010839 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 376686010840 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 376686010841 Zn binding site [ion binding]; other site 376686010842 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 376686010843 tetramer interface [polypeptide binding]; other site 376686010844 TPP-binding site [chemical binding]; other site 376686010845 heterodimer interface [polypeptide binding]; other site 376686010846 phosphorylation loop region [posttranslational modification] 376686010847 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 376686010848 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 376686010849 PYR/PP interface [polypeptide binding]; other site 376686010850 dimer interface [polypeptide binding]; other site 376686010851 TPP binding site [chemical binding]; other site 376686010852 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 376686010853 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 376686010854 Ligand binding site; other site 376686010855 oligomer interface; other site 376686010856 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 376686010857 PQQ-like domain; Region: PQQ_2; pfam13360 376686010858 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 376686010859 active site 376686010860 Trp docking motif [polypeptide binding]; other site 376686010861 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686010862 Family description; Region: UvrD_C_2; cl15862 376686010863 Protein of unknown function (DUF3822); Region: DUF3822; pfam12864 376686010864 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 376686010865 S-adenosylmethionine binding site [chemical binding]; other site 376686010866 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 376686010867 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 376686010868 dimer interface [polypeptide binding]; other site 376686010869 phosphorylation site [posttranslational modification] 376686010870 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 376686010871 ATP binding site [chemical binding]; other site 376686010872 Mg2+ binding site [ion binding]; other site 376686010873 G-X-G motif; other site 376686010874 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 376686010875 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 376686010876 active site 376686010877 phosphorylation site [posttranslational modification] 376686010878 intermolecular recognition site; other site 376686010879 dimerization interface [polypeptide binding]; other site 376686010880 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 376686010881 DNA binding site [nucleotide binding] 376686010882 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 376686010883 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 376686010884 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 376686010885 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 376686010886 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 376686010887 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 376686010888 putative peptidoglycan binding site; other site 376686010889 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14970 376686010890 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 376686010891 Walker A motif; other site 376686010892 ATP binding site [chemical binding]; other site 376686010893 Walker B motif; other site 376686010894 arginine finger; other site 376686010895 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 376686010896 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 376686010897 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 376686010898 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 376686010899 ligand binding site [chemical binding]; other site 376686010900 flexible hinge region; other site 376686010901 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 376686010902 polyphosphate kinase; Provisional; Region: PRK05443 376686010903 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 376686010904 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 376686010905 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 376686010906 domain interface [polypeptide binding]; other site 376686010907 active site 376686010908 catalytic site [active] 376686010909 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 376686010910 domain interface [polypeptide binding]; other site 376686010911 active site 376686010912 catalytic site [active] 376686010913 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 376686010914 catalytic core [active] 376686010915 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 376686010916 metal ion-dependent adhesion site (MIDAS); other site 376686010917 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686010918 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 376686010919 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 376686010920 binding surface 376686010921 TPR motif; other site 376686010922 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 376686010923 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686010924 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 376686010925 ligand binding site [chemical binding]; other site 376686010926 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 376686010927 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 376686010928 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 376686010929 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 376686010930 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 376686010931 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 376686010932 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 376686010933 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686010934 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 376686010935 active site 376686010936 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 376686010937 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686010938 Walker A/P-loop; other site 376686010939 ATP binding site [chemical binding]; other site 376686010940 Q-loop/lid; other site 376686010941 ABC transporter signature motif; other site 376686010942 Walker B; other site 376686010943 D-loop; other site 376686010944 H-loop/switch region; other site 376686010945 ABC transporter; Region: ABC_tran_2; pfam12848 376686010946 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 376686010947 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 376686010948 catalytic residues [active] 376686010949 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 376686010950 non-specific DNA binding site [nucleotide binding]; other site 376686010951 salt bridge; other site 376686010952 sequence-specific DNA binding site [nucleotide binding]; other site 376686010953 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 376686010954 Glyco_18 domain; Region: Glyco_18; smart00636 376686010955 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 376686010956 active site 376686010957 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 376686010958 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686010959 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686010960 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686010961 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686010962 GH18 domain of Chitinase D (ChiD). ChiD, a chitinase found in Bacillus circulans, hydrolyzes the 1,4-beta-linkages of N-acetylglucosamine in chitin and chitodextrins. The domain architecture of ChiD includes a catalytic glycosyl hydrolase family 18; Region: GH18_chitinase_D-like; cd02871 376686010963 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 376686010964 putative active site [active] 376686010965 A functionally uncharacterized subgroup of the Glycosyl hydrolase family 20 (GH20) catalytic domain found in proteins similar to the chitobiase of Serratia marcescens, a beta-N-1,4-acetylhexosaminidase that hydrolyzes the beta-1,4-glycosidic linkages in...; Region: GH20_chitobiase-like_1; cd06570 376686010966 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 376686010967 active site 376686010968 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 376686010969 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 376686010970 active site 376686010971 trimer interface [polypeptide binding]; other site 376686010972 allosteric site; other site 376686010973 active site lid [active] 376686010974 hexamer (dimer of trimers) interface [polypeptide binding]; other site 376686010975 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 376686010976 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 376686010977 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686010978 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686010979 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686010980 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 376686010981 Glyco_18 domain; Region: Glyco_18; smart00636 376686010982 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 376686010983 active site 376686010984 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 376686010985 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686010986 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686010987 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686010988 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 376686010989 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 376686010990 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 376686010991 Histidine kinase; Region: His_kinase; pfam06580 376686010992 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686010993 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 376686010994 active site 376686010995 phosphorylation site [posttranslational modification] 376686010996 intermolecular recognition site; other site 376686010997 dimerization interface [polypeptide binding]; other site 376686010998 LytTr DNA-binding domain; Region: LytTR; cl04498 376686010999 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 376686011000 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 376686011001 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 376686011002 active site 376686011003 intersubunit interactions; other site 376686011004 catalytic residue [active] 376686011005 short chain dehydrogenase; Validated; Region: PRK06182 376686011006 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 376686011007 NADP binding site [chemical binding]; other site 376686011008 active site 376686011009 steroid binding site; other site 376686011010 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 376686011011 imidazolonepropionase; Validated; Region: PRK09356 376686011012 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 376686011013 active site 376686011014 Arginase family; Region: Arginase; cl00306 376686011015 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 376686011016 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 376686011017 ATP binding site [chemical binding]; other site 376686011018 Mg++ binding site [ion binding]; other site 376686011019 motif III; other site 376686011020 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 376686011021 nucleotide binding region [chemical binding]; other site 376686011022 ATP-binding site [chemical binding]; other site 376686011023 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686011024 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 376686011025 binding surface 376686011026 TPR motif; other site 376686011027 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 376686011028 dimer interface [polypeptide binding]; other site 376686011029 phosphorylation site [posttranslational modification] 376686011030 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 376686011031 ATP binding site [chemical binding]; other site 376686011032 Mg2+ binding site [ion binding]; other site 376686011033 G-X-G motif; other site 376686011034 Response regulator receiver domain; Region: Response_reg; pfam00072 376686011035 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 376686011036 active site 376686011037 phosphorylation site [posttranslational modification] 376686011038 intermolecular recognition site; other site 376686011039 dimerization interface [polypeptide binding]; other site 376686011040 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 376686011041 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 376686011042 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 376686011043 Tetramer interface [polypeptide binding]; other site 376686011044 active site 376686011045 FMN-binding site [chemical binding]; other site 376686011046 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 376686011047 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 376686011048 putative active site [active] 376686011049 putative metal binding site [ion binding]; other site 376686011050 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 376686011051 PrcB C-terminal; Region: PrcB_C; pfam14343 376686011052 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 376686011053 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_5; cd04962 376686011054 Cysteine-rich domain; Region: CCG; pfam02754 376686011055 Cysteine-rich domain; Region: CCG; pfam02754 376686011056 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 376686011057 4Fe-4S binding domain; Region: Fer4; cl02805 376686011058 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 376686011059 mce related protein; Region: MCE; pfam02470 376686011060 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 376686011061 active site 376686011062 metal binding site [ion binding]; metal-binding site 376686011063 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 376686011064 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 376686011065 homotrimer interaction site [polypeptide binding]; other site 376686011066 putative active site [active] 376686011067 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 376686011068 substrate binding site [chemical binding]; other site 376686011069 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 376686011070 glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PTZ00023 376686011071 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686011072 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 376686011073 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 376686011074 active site 376686011075 ADP/pyrophosphate binding site [chemical binding]; other site 376686011076 dimerization interface [polypeptide binding]; other site 376686011077 allosteric effector site; other site 376686011078 fructose-1,6-bisphosphate binding site; other site 376686011079 Family of unknown function (DUF490); Region: DUF490; pfam04357 376686011080 Family of unknown function (DUF490); Region: DUF490; pfam04357 376686011081 UGMP family protein; Validated; Region: PRK09604 376686011082 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 376686011083 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 376686011084 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 376686011085 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 376686011086 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 376686011087 Zinc-dependent metalloprotease, pappalysin_like subfamily. The pregnancy-associated plasma protein A (PAPP-A or pappalysin-1) cleaves insulin-like growth factor-binding proteins 4 and 5, thereby promoting cell growth by releasing bound growth factor; Region: ZnMc_pappalysin_like; cd04275 376686011088 active site 376686011089 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 376686011090 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 376686011091 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 376686011092 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 376686011093 Predicted acyl esterases [General function prediction only]; Region: COG2936 376686011094 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 376686011095 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 376686011096 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 376686011097 metal binding site [ion binding]; metal-binding site 376686011098 Fatty acid desaturase; Region: FA_desaturase; pfam00487 376686011099 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 376686011100 putative di-iron ligands [ion binding]; other site 376686011101 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 376686011102 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cl00248 376686011103 substrate binding site [chemical binding]; other site 376686011104 dimerization interface [polypeptide binding]; other site 376686011105 active site 376686011106 calcium binding site [ion binding]; other site 376686011107 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 376686011108 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 376686011109 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 376686011110 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 376686011111 putative substrate translocation pore; other site 376686011112 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 376686011113 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 376686011114 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 376686011115 acetyl-CoA C-acetyltransferase; Region: PLN02644 376686011116 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 376686011117 dimer interface [polypeptide binding]; other site 376686011118 active site 376686011119 Bacterial SH3 domain; Region: SH3_3; cl02551 376686011120 NlpC/P60 family; Region: NLPC_P60; cl11438 376686011121 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 376686011122 Cupin domain; Region: Cupin_2; cl09118 376686011123 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 376686011124 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686011125 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 376686011126 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 376686011127 active site 376686011128 catalytic tetrad [active] 376686011129 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 376686011130 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 376686011131 Domain of unknown function (DUF3291); Region: DUF3291; pfam11695 376686011132 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 376686011133 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 376686011134 S-adenosylmethionine binding site [chemical binding]; other site 376686011135 Transcriptional regulator [Transcription]; Region: LysR; COG0583 376686011136 Helix-turn-helix domains; Region: HTH; cl00088 376686011137 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 376686011138 dimerization interface [polypeptide binding]; other site 376686011139 substrate binding pocket [chemical binding]; other site 376686011140 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 376686011141 Predicted membrane protein [Function unknown]; Region: COG3650 376686011142 META domain; Region: META; cl01245 376686011143 nitrite reductase subunit NirD; Provisional; Region: PRK14989 376686011144 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 376686011145 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 376686011146 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 376686011147 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 376686011148 Domain of unknown function (DUF4202); Region: DUF4202; pfam13875 376686011149 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 376686011150 PAS domain; Region: PAS_9; pfam13426 376686011151 Histidine kinase; Region: HisKA_3; pfam07730 376686011152 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 376686011153 ATP binding site [chemical binding]; other site 376686011154 Mg2+ binding site [ion binding]; other site 376686011155 G-X-G motif; other site 376686011156 Response regulator receiver domain; Region: Response_reg; pfam00072 376686011157 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 376686011158 active site 376686011159 phosphorylation site [posttranslational modification] 376686011160 intermolecular recognition site; other site 376686011161 dimerization interface [polypeptide binding]; other site 376686011162 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 376686011163 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 376686011164 DNA binding residues [nucleotide binding] 376686011165 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 376686011166 putative substrate translocation pore; other site 376686011167 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 376686011168 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 376686011169 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 376686011170 S-adenosylmethionine binding site [chemical binding]; other site 376686011171 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 376686011172 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 376686011173 ligand binding site [chemical binding]; other site 376686011174 flexible hinge region; other site 376686011175 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 376686011176 putative switch regulator; other site 376686011177 non-specific DNA interactions [nucleotide binding]; other site 376686011178 DNA binding site [nucleotide binding] 376686011179 sequence specific DNA binding site [nucleotide binding]; other site 376686011180 putative cAMP binding site [chemical binding]; other site 376686011181 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 376686011182 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 376686011183 [4Fe-4S] binding site [ion binding]; other site 376686011184 molybdopterin cofactor binding site; other site 376686011185 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 376686011186 molybdopterin cofactor binding site; other site 376686011187 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 376686011188 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 376686011189 Rubredoxin; Region: Rubredoxin; pfam00301 376686011190 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 376686011191 iron binding site [ion binding]; other site 376686011192 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 376686011193 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 376686011194 FeS/SAM binding site; other site 376686011195 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 376686011196 bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional; Region: moaC; PRK03604 376686011197 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 376686011198 trimer interface [polypeptide binding]; other site 376686011199 dimer interface [polypeptide binding]; other site 376686011200 putative active site [active] 376686011201 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 376686011202 MPT binding site; other site 376686011203 trimer interface [polypeptide binding]; other site 376686011204 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 376686011205 MoaE homodimer interface [polypeptide binding]; other site 376686011206 MoaD interaction [polypeptide binding]; other site 376686011207 active site residues [active] 376686011208 hypothetical protein; Validated; Region: PRK07411 376686011209 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 376686011210 ATP binding site [chemical binding]; other site 376686011211 substrate interface [chemical binding]; other site 376686011212 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 376686011213 active site residue [active] 376686011214 Ubiquitin-like proteins; Region: UBQ; cl00155 376686011215 charged pocket; other site 376686011216 hydrophobic patch; other site 376686011217 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 376686011218 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 376686011219 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 376686011220 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 376686011221 GTP binding site; other site 376686011222 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 376686011223 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 376686011224 dimer interface [polypeptide binding]; other site 376686011225 putative functional site; other site 376686011226 putative MPT binding site; other site 376686011227 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686011228 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686011229 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 376686011230 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 376686011231 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686011232 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 376686011233 Sulfatase; Region: Sulfatase; cl10460 376686011234 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 376686011235 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 376686011236 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 376686011237 active site residue [active] 376686011238 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 376686011239 catalytic residues [active] 376686011240 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 376686011241 Sulfatase; Region: Sulfatase; cl10460 376686011242 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 376686011243 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 376686011244 Sulfatase; Region: Sulfatase; cl10460 376686011245 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 376686011246 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 376686011247 dimer interface [polypeptide binding]; other site 376686011248 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686011249 catalytic residue [active] 376686011250 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 376686011251 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 376686011252 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 376686011253 catalytic residue [active] 376686011254 Protein of unknown function (DUF1810); Region: DUF1810; cl02370 376686011255 ornithine aminotransferase; Region: Orn_aminotrans; TIGR01885 376686011256 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 376686011257 inhibitor-cofactor binding pocket; inhibition site 376686011258 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686011259 catalytic residue [active] 376686011260 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 376686011261 Helix-turn-helix domains; Region: HTH; cl00088 376686011262 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 376686011263 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 376686011264 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 376686011265 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 376686011266 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 376686011267 metal binding site [ion binding]; metal-binding site 376686011268 transcription termination factor Rho; Provisional; Region: PRK12608 376686011269 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 376686011270 RNA binding site [nucleotide binding]; other site 376686011271 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 376686011272 multimer interface [polypeptide binding]; other site 376686011273 Walker A motif; other site 376686011274 ATP binding site [chemical binding]; other site 376686011275 Walker B motif; other site 376686011276 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 376686011277 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 376686011278 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 376686011279 active site 376686011280 phosphorylation site [posttranslational modification] 376686011281 intermolecular recognition site; other site 376686011282 dimerization interface [polypeptide binding]; other site 376686011283 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 376686011284 DNA binding residues [nucleotide binding] 376686011285 dimerization interface [polypeptide binding]; other site 376686011286 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 376686011287 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 376686011288 ATP binding site [chemical binding]; other site 376686011289 Mg2+ binding site [ion binding]; other site 376686011290 G-X-G motif; other site 376686011291 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 376686011292 active site 376686011293 metal binding site [ion binding]; metal-binding site 376686011294 homotetramer interface [polypeptide binding]; other site 376686011295 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 376686011296 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 376686011297 dimerization interface 3.5A [polypeptide binding]; other site 376686011298 active site 376686011299 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 376686011300 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 376686011301 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 376686011302 Walker A/P-loop; other site 376686011303 ATP binding site [chemical binding]; other site 376686011304 Q-loop/lid; other site 376686011305 ABC transporter signature motif; other site 376686011306 Walker B; other site 376686011307 D-loop; other site 376686011308 H-loop/switch region; other site 376686011309 Cache domain; Region: Cache_1; pfam02743 376686011310 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 376686011311 Histidine kinase; Region: His_kinase; pfam06580 376686011312 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 376686011313 active site 376686011314 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686011315 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686011316 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 376686011317 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 376686011318 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686011319 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686011320 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 376686011321 active site 376686011322 phosphorylation site [posttranslational modification] 376686011323 intermolecular recognition site; other site 376686011324 dimerization interface [polypeptide binding]; other site 376686011325 LytTr DNA-binding domain; Region: LytTR; cl04498 376686011326 NUMOD4 motif; Region: NUMOD4; pfam07463 376686011327 HNH endonuclease; Region: HNH_3; pfam13392 376686011328 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 376686011329 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686011330 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 376686011331 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 376686011332 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 376686011333 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 376686011334 Short C-terminal domain; Region: SHOCT; cl01373 376686011335 Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); Region: Auto_anti-p27; cl00713 376686011336 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 376686011337 Uncharacterized protein conserved in bacteria (DUF2314); Region: DUF2314; pfam10077 376686011338 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 376686011339 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 376686011340 Repair protein; Region: Repair_PSII; cl01535 376686011341 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 376686011342 Arginase family; Region: Arginase; cl00306 376686011343 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 376686011344 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686011345 Coenzyme A binding pocket [chemical binding]; other site 376686011346 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 376686011347 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 376686011348 putative hydrophobic ligand binding site [chemical binding]; other site 376686011349 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 376686011350 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686011351 NAD(P) binding site [chemical binding]; other site 376686011352 active site 376686011353 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686011354 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686011355 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 376686011356 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 376686011357 Protein of unknown function (DUF419); Region: DUF419; cl15265 376686011358 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 376686011359 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 376686011360 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 376686011361 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 376686011362 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 376686011363 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_8; cd08901 376686011364 putative hydrophobic ligand binding site [chemical binding]; other site 376686011365 Protein of unknown function (DUF419); Region: DUF419; cl15265 376686011366 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 376686011367 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_17; cd08356 376686011368 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686011369 Protein of unknown function DUF2625; Region: DUF2625; cl08177 376686011370 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 376686011371 The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial...; Region: Na_H_Antiporter_C; cd01988 376686011372 Ligand Binding Site [chemical binding]; other site 376686011373 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 376686011374 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 376686011375 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 376686011376 Bacterial SH3 domain; Region: SH3_3; cl02551 376686011377 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 376686011378 oligomerization interface [polypeptide binding]; other site 376686011379 active site 376686011380 metal binding site [ion binding]; metal-binding site 376686011381 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 376686011382 active site 376686011383 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 376686011384 NAD(P) binding site [chemical binding]; other site 376686011385 catalytic residues [active] 376686011386 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 376686011387 PAS domain; Region: PAS_9; pfam13426 376686011388 PAS domain S-box; Region: sensory_box; TIGR00229 376686011389 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 376686011390 putative active site [active] 376686011391 heme pocket [chemical binding]; other site 376686011392 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 376686011393 GAF domain; Region: GAF; cl15785 376686011394 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 376686011395 GAF domain; Region: GAF; cl15785 376686011396 PAS fold; Region: PAS_3; pfam08447 376686011397 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 376686011398 putative active site [active] 376686011399 heme pocket [chemical binding]; other site 376686011400 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 376686011401 dimer interface [polypeptide binding]; other site 376686011402 phosphorylation site [posttranslational modification] 376686011403 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 376686011404 ATP binding site [chemical binding]; other site 376686011405 Mg2+ binding site [ion binding]; other site 376686011406 G-X-G motif; other site 376686011407 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 376686011408 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 376686011409 active site 376686011410 phosphorylation site [posttranslational modification] 376686011411 intermolecular recognition site; other site 376686011412 dimerization interface [polypeptide binding]; other site 376686011413 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 376686011414 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 376686011415 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 376686011416 chorismate binding enzyme; Region: Chorismate_bind; cl10555 376686011417 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 376686011418 CoenzymeA binding site [chemical binding]; other site 376686011419 subunit interaction site [polypeptide binding]; other site 376686011420 PHB binding site; other site 376686011421 Endonuclease I; Region: Endonuclease_1; cl01003 376686011422 Lamin Tail Domain; Region: LTD; pfam00932 376686011423 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686011424 Endonuclease I; Region: Endonuclease_1; cl01003 376686011425 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 376686011426 Lamin Tail Domain; Region: LTD; pfam00932 376686011427 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686011428 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 376686011429 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 376686011430 dimerization interface [polypeptide binding]; other site 376686011431 ATP binding site [chemical binding]; other site 376686011432 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 376686011433 dimerization interface [polypeptide binding]; other site 376686011434 ATP binding site [chemical binding]; other site 376686011435 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 376686011436 putative active site [active] 376686011437 catalytic triad [active] 376686011438 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686011439 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 376686011440 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 376686011441 AMP-binding enzyme; Region: AMP-binding; cl15778 376686011442 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 376686011443 active site 376686011444 substrate binding site [chemical binding]; other site 376686011445 catalytic site [active] 376686011446 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 376686011447 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 376686011448 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 376686011449 active site 376686011450 phosphorylation site [posttranslational modification] 376686011451 intermolecular recognition site; other site 376686011452 dimerization interface [polypeptide binding]; other site 376686011453 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 376686011454 dimerization interface [polypeptide binding]; other site 376686011455 DNA binding residues [nucleotide binding] 376686011456 Histidine kinase; Region: HisKA_3; pfam07730 376686011457 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 376686011458 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 376686011459 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 376686011460 active site 376686011461 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 376686011462 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 376686011463 Catalytic site [active] 376686011464 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 376686011465 hypothetical protein; Reviewed; Region: PRK09588 376686011466 RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in...; Region: RING; cl15348 376686011467 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 376686011468 putative metal binding site [ion binding]; other site 376686011469 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 376686011470 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 376686011471 polycystin cation channel protein; Region: PCC; TIGR00864 376686011472 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 376686011473 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 376686011474 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686011475 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686011476 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 376686011477 polycystin cation channel protein; Region: PCC; TIGR00864 376686011478 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 376686011479 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686011480 WYL domain; Region: WYL; cl14852 376686011481 Transcriptional regulators [Transcription]; Region: MarR; COG1846 376686011482 Helix-turn-helix domains; Region: HTH; cl00088 376686011483 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 376686011484 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686011485 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 376686011486 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 376686011487 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 376686011488 substrate binding site [chemical binding]; other site 376686011489 oxyanion hole (OAH) forming residues; other site 376686011490 trimer interface [polypeptide binding]; other site 376686011491 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 376686011492 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 376686011493 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 376686011494 dimer interface [polypeptide binding]; other site 376686011495 active site 376686011496 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 376686011497 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 376686011498 active site 376686011499 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 376686011500 Glyco_18 domain; Region: Glyco_18; smart00636 376686011501 active site 376686011502 Domain of unknown function (DUF4251); Region: DUF4251; pfam14059 376686011503 META domain; Region: META; cl01245 376686011504 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 376686011505 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 376686011506 E-class dimer interface [polypeptide binding]; other site 376686011507 P-class dimer interface [polypeptide binding]; other site 376686011508 active site 376686011509 Cu2+ binding site [ion binding]; other site 376686011510 Zn2+ binding site [ion binding]; other site 376686011511 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 376686011512 active site clefts [active] 376686011513 zinc binding site [ion binding]; other site 376686011514 dimer interface [polypeptide binding]; other site 376686011515 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 376686011516 Sulfate transporter family; Region: Sulfate_transp; cl15842 376686011517 Sulfate transporter family; Region: Sulfate_transp; cl15842 376686011518 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 376686011519 dimerization interface [polypeptide binding]; other site 376686011520 DPS ferroxidase diiron center [ion binding]; other site 376686011521 ion pore; other site 376686011522 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 376686011523 Helix-turn-helix domains; Region: HTH; cl00088 376686011524 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 376686011525 dimerization interface [polypeptide binding]; other site 376686011526 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 376686011527 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 376686011528 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 376686011529 homodimer interface [polypeptide binding]; other site 376686011530 substrate-cofactor binding pocket; other site 376686011531 catalytic residue [active] 376686011532 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 376686011533 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 376686011534 putative hydrophobic ligand binding site [chemical binding]; other site 376686011535 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 376686011536 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686011537 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 376686011538 DNA binding residues [nucleotide binding] 376686011539 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 376686011540 K+ potassium transporter; Region: K_trans; cl15781 376686011541 16S rRNA methyltransferase B; Provisional; Region: PRK14902 376686011542 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 376686011543 S-adenosylmethionine binding site [chemical binding]; other site 376686011544 AMP-binding enzyme; Region: AMP-binding; cl15778 376686011545 acyl-CoA synthetase; Validated; Region: PRK07798 376686011546 CAAX protease self-immunity; Region: Abi; cl00558 376686011547 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 376686011548 ArsC family; Region: ArsC; pfam03960 376686011549 catalytic residues [active] 376686011550 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686011551 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 376686011552 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 376686011553 fumarate hydratase; Reviewed; Region: fumC; PRK00485 376686011554 Class II fumarases; Region: Fumarase_classII; cd01362 376686011555 active site 376686011556 tetramer interface [polypeptide binding]; other site 376686011557 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 376686011558 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 376686011559 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686011560 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 376686011561 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686011562 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 376686011563 FecR protein; Region: FecR; pfam04773 376686011564 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 376686011565 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686011566 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 376686011567 DNA binding residues [nucleotide binding] 376686011568 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 376686011569 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 376686011570 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 376686011571 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39B; cd02418 376686011572 putative active site [active] 376686011573 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 376686011574 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686011575 Walker A/P-loop; other site 376686011576 ATP binding site [chemical binding]; other site 376686011577 Q-loop/lid; other site 376686011578 ABC transporter signature motif; other site 376686011579 Walker B; other site 376686011580 D-loop; other site 376686011581 H-loop/switch region; other site 376686011582 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 376686011583 Vitamin K epoxide reductase family; Region: VKOR; cl01729 376686011584 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 376686011585 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 376686011586 non-specific DNA binding site [nucleotide binding]; other site 376686011587 salt bridge; other site 376686011588 sequence-specific DNA binding site [nucleotide binding]; other site 376686011589 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686011590 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 376686011591 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 376686011592 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 376686011593 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 376686011594 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 376686011595 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 376686011596 putative active site [active] 376686011597 OpgC protein; Region: OpgC_C; cl00792 376686011598 Acyltransferase family; Region: Acyl_transf_3; pfam01757 376686011599 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 376686011600 putative transporter; Provisional; Region: PRK10504 376686011601 putative substrate translocation pore; other site 376686011602 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 376686011603 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 376686011604 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 376686011605 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 376686011606 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 376686011607 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 376686011608 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 376686011609 active site 376686011610 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 376686011611 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 376686011612 Putative esterase; Region: Esterase; pfam00756 376686011613 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 376686011614 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 376686011615 FAD binding domain; Region: FAD_binding_4; pfam01565 376686011616 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 376686011617 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 376686011618 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 376686011619 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 376686011620 active site 376686011621 trimer interface [polypeptide binding]; other site 376686011622 allosteric site; other site 376686011623 active site lid [active] 376686011624 hexamer (dimer of trimers) interface [polypeptide binding]; other site 376686011625 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 376686011626 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 376686011627 Helix-turn-helix domains; Region: HTH; cl00088 376686011628 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 376686011629 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686011630 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686011631 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 376686011632 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 376686011633 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686011634 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 376686011635 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 376686011636 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 376686011637 putative active site [active] 376686011638 Sodium:solute symporter family; Region: SSF; cl00456 376686011639 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 376686011640 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 376686011641 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 376686011642 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 376686011643 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 376686011644 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 376686011645 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 376686011646 N-terminal plug; other site 376686011647 ligand-binding site [chemical binding]; other site 376686011648 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 376686011649 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 376686011650 DNA-binding site [nucleotide binding]; DNA binding site 376686011651 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 376686011652 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686011653 homodimer interface [polypeptide binding]; other site 376686011654 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 376686011655 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686011656 NADH(P)-binding; Region: NAD_binding_10; pfam13460 376686011657 NAD(P) binding site [chemical binding]; other site 376686011658 active site 376686011659 Helix-turn-helix domain; Region: HTH_18; pfam12833 376686011660 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686011661 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686011662 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 376686011663 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 376686011664 Urea transporter; Region: UT; cl01829 376686011665 UreD urease accessory protein; Region: UreD; cl00530 376686011666 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686011667 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 376686011668 UreF; Region: UreF; pfam01730 376686011669 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 376686011670 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 376686011671 dimer interface [polypeptide binding]; other site 376686011672 catalytic residues [active] 376686011673 urease subunit alpha; Reviewed; Region: ureC; PRK13207 376686011674 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 376686011675 subunit interactions [polypeptide binding]; other site 376686011676 active site 376686011677 flap region; other site 376686011678 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 376686011679 gamma-beta subunit interface [polypeptide binding]; other site 376686011680 alpha-beta subunit interface [polypeptide binding]; other site 376686011681 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 376686011682 alpha-gamma subunit interface [polypeptide binding]; other site 376686011683 beta-gamma subunit interface [polypeptide binding]; other site 376686011684 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 376686011685 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 376686011686 DXD motif; other site 376686011687 Response regulator receiver domain; Region: Response_reg; pfam00072 376686011688 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 376686011689 active site 376686011690 phosphorylation site [posttranslational modification] 376686011691 intermolecular recognition site; other site 376686011692 dimerization interface [polypeptide binding]; other site 376686011693 PAS domain S-box; Region: sensory_box; TIGR00229 376686011694 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 376686011695 PAS fold; Region: PAS_4; pfam08448 376686011696 PAS fold; Region: PAS_4; pfam08448 376686011697 PAS fold; Region: PAS_3; pfam08447 376686011698 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 376686011699 PAS domain; Region: PAS_9; pfam13426 376686011700 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 376686011701 PAS fold; Region: PAS_3; pfam08447 376686011702 putative active site [active] 376686011703 heme pocket [chemical binding]; other site 376686011704 PAS domain S-box; Region: sensory_box; TIGR00229 376686011705 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 376686011706 putative active site [active] 376686011707 heme pocket [chemical binding]; other site 376686011708 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 376686011709 dimer interface [polypeptide binding]; other site 376686011710 phosphorylation site [posttranslational modification] 376686011711 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 376686011712 ATP binding site [chemical binding]; other site 376686011713 Mg2+ binding site [ion binding]; other site 376686011714 G-X-G motif; other site 376686011715 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 376686011716 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 376686011717 TPR motif; other site 376686011718 binding surface 376686011719 Tetratricopeptide repeat; Region: TPR_12; pfam13424 376686011720 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 376686011721 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 376686011722 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 376686011723 Haemolytic domain; Region: Haemolytic; cl00506 376686011724 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 376686011725 Domain of unknown function (DUF4359); Region: DUF4359; pfam14271 376686011726 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 376686011727 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 376686011728 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 376686011729 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 376686011730 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 376686011731 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 376686011732 Helix-turn-helix domains; Region: HTH; cl00088 376686011733 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 376686011734 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 376686011735 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 376686011736 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 376686011737 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 376686011738 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 376686011739 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686011740 Coenzyme A binding pocket [chemical binding]; other site 376686011741 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 376686011742 ACT domain; Region: ACT_3; pfam10000 376686011743 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 376686011744 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 376686011745 Zn binding site [ion binding]; other site 376686011746 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 376686011747 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 376686011748 tetrameric interface [polypeptide binding]; other site 376686011749 activator binding site; other site 376686011750 NADP binding site [chemical binding]; other site 376686011751 substrate binding site [chemical binding]; other site 376686011752 catalytic residues [active] 376686011753 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 376686011754 active site residue [active] 376686011755 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 376686011756 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 376686011757 ligand binding site [chemical binding]; other site 376686011758 flexible hinge region; other site 376686011759 Helix-turn-helix domains; Region: HTH; cl00088 376686011760 putative switch regulator; other site 376686011761 non-specific DNA interactions [nucleotide binding]; other site 376686011762 DNA binding site [nucleotide binding] 376686011763 sequence specific DNA binding site [nucleotide binding]; other site 376686011764 putative cAMP binding site [chemical binding]; other site 376686011765 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 376686011766 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 376686011767 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 376686011768 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686011769 Coenzyme A binding pocket [chemical binding]; other site 376686011770 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 376686011771 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 376686011772 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 376686011773 AAA domain; Region: AAA_21; pfam13304 376686011774 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 376686011775 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 376686011776 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 376686011777 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 376686011778 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 376686011779 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 376686011780 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 376686011781 active site residue [active] 376686011782 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 376686011783 active site residue [active] 376686011784 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 376686011785 Predicted transporter component [General function prediction only]; Region: COG2391 376686011786 Sulphur transport; Region: Sulf_transp; cl01018 376686011787 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 376686011788 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 376686011789 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 376686011790 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686011791 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 376686011792 Helix-turn-helix domains; Region: HTH; cl00088 376686011793 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 376686011794 dimer interface [polypeptide binding]; other site 376686011795 FMN binding site [chemical binding]; other site 376686011796 YceI-like domain; Region: YceI; cl01001 376686011797 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 376686011798 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 376686011799 chorismate binding enzyme; Region: Chorismate_bind; cl10555 376686011800 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 376686011801 Glutamine amidotransferase class-I; Region: GATase; pfam00117 376686011802 glutamine binding [chemical binding]; other site 376686011803 catalytic triad [active] 376686011804 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 376686011805 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 376686011806 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 376686011807 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 376686011808 active site 376686011809 ribulose/triose binding site [chemical binding]; other site 376686011810 phosphate binding site [ion binding]; other site 376686011811 substrate (anthranilate) binding pocket [chemical binding]; other site 376686011812 product (indole) binding pocket [chemical binding]; other site 376686011813 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 376686011814 active site 376686011815 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 376686011816 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 376686011817 pyridoxal 5'-phosphate binding site [chemical binding]; other site 376686011818 catalytic residue [active] 376686011819 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 376686011820 putative active site pocket [active] 376686011821 dimerization interface [polypeptide binding]; other site 376686011822 putative catalytic residue [active] 376686011823 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 376686011824 active site 376686011825 catalytic triad [active] 376686011826 dimer interface [polypeptide binding]; other site 376686011827 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 376686011828 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 376686011829 substrate binding site [chemical binding]; other site 376686011830 active site 376686011831 catalytic residues [active] 376686011832 heterodimer interface [polypeptide binding]; other site 376686011833 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 376686011834 Zn binding site [ion binding]; other site 376686011835 Helix-turn-helix domains; Region: HTH; cl00088 376686011836 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 376686011837 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 376686011838 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 376686011839 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 376686011840 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 376686011841 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 376686011842 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 376686011843 putative substrate translocation pore; other site 376686011844 Protein of unknown function (DUF328); Region: DUF328; cl01143 376686011845 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 376686011846 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 376686011847 active site 376686011848 NTP binding site [chemical binding]; other site 376686011849 metal binding triad [ion binding]; metal-binding site 376686011850 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 376686011851 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 376686011852 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 376686011853 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 376686011854 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 376686011855 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686011856 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 376686011857 active site 376686011858 phosphorylation site [posttranslational modification] 376686011859 intermolecular recognition site; other site 376686011860 dimerization interface [polypeptide binding]; other site 376686011861 LytTr DNA-binding domain; Region: LytTR; cl04498 376686011862 2TM domain; Region: 2TM; pfam13239 376686011863 2TM domain; Region: 2TM; pfam13239 376686011864 2TM domain; Region: 2TM; pfam13239 376686011865 2TM domain; Region: 2TM; pfam13239 376686011866 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 376686011867 Histidine kinase; Region: His_kinase; pfam06580 376686011868 2TM domain; Region: 2TM; pfam13239 376686011869 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 376686011870 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686011871 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 376686011872 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 376686011873 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 376686011874 DinB superfamily; Region: DinB_2; pfam12867 376686011875 maltose O-acetyltransferase; Provisional; Region: PRK10092 376686011876 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 376686011877 active site 376686011878 substrate binding site [chemical binding]; other site 376686011879 trimer interface [polypeptide binding]; other site 376686011880 CoA binding site [chemical binding]; other site 376686011881 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_1; cd08352 376686011882 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 376686011883 putative metal binding site [ion binding]; other site 376686011884 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 376686011885 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 376686011886 Cl- selectivity filter; other site 376686011887 Cl- binding residues [ion binding]; other site 376686011888 pore gating glutamate residue; other site 376686011889 dimer interface [polypeptide binding]; other site 376686011890 HPP family; Region: HPP; pfam04982 376686011891 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 376686011892 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 376686011893 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 376686011894 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 376686011895 Helix-turn-helix domains; Region: HTH; cl00088 376686011896 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 376686011897 classical (c) SDRs; Region: SDR_c; cd05233 376686011898 NAD(P) binding site [chemical binding]; other site 376686011899 active site 376686011900 GAF domain; Region: GAF_2; pfam13185 376686011901 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 376686011902 Zn2+ binding site [ion binding]; other site 376686011903 Mg2+ binding site [ion binding]; other site 376686011904 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 376686011905 active site 376686011906 metal binding site [ion binding]; metal-binding site 376686011907 SdiA-regulated; Region: SdiA-regulated; cd09971 376686011908 putative active site [active] 376686011909 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 376686011910 The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme...; Region: ABC_BcrA_bacitracin_resist; cd03268 376686011911 Walker A/P-loop; other site 376686011912 ATP binding site [chemical binding]; other site 376686011913 Q-loop/lid; other site 376686011914 ABC transporter signature motif; other site 376686011915 Walker B; other site 376686011916 D-loop; other site 376686011917 H-loop/switch region; other site 376686011918 ABC-2 type transporter; Region: ABC2_membrane; cl11417 376686011919 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686011920 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 376686011921 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 376686011922 G1 box; other site 376686011923 putative GEF interaction site [polypeptide binding]; other site 376686011924 GTP/Mg2+ binding site [chemical binding]; other site 376686011925 Switch I region; other site 376686011926 G2 box; other site 376686011927 G3 box; other site 376686011928 Switch II region; other site 376686011929 G4 box; other site 376686011930 G5 box; other site 376686011931 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 376686011932 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 376686011933 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 376686011934 PAS fold; Region: PAS_3; pfam08447 376686011935 putative active site [active] 376686011936 heme pocket [chemical binding]; other site 376686011937 PAS domain; Region: PAS_9; pfam13426 376686011938 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 376686011939 putative active site [active] 376686011940 heme pocket [chemical binding]; other site 376686011941 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 376686011942 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 376686011943 ATP binding site [chemical binding]; other site 376686011944 Mg2+ binding site [ion binding]; other site 376686011945 G-X-G motif; other site 376686011946 Response regulator receiver domain; Region: Response_reg; pfam00072 376686011947 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 376686011948 active site 376686011949 phosphorylation site [posttranslational modification] 376686011950 intermolecular recognition site; other site 376686011951 dimerization interface [polypeptide binding]; other site 376686011952 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 376686011953 prolyl-tRNA synthetase; Provisional; Region: PRK08661 376686011954 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 376686011955 dimer interface [polypeptide binding]; other site 376686011956 motif 1; other site 376686011957 active site 376686011958 motif 2; other site 376686011959 motif 3; other site 376686011960 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 376686011961 anticodon binding site; other site 376686011962 zinc-binding site [ion binding]; other site 376686011963 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 376686011964 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 376686011965 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 376686011966 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 376686011967 FeS/SAM binding site; other site 376686011968 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 376686011969 amidase catalytic site [active] 376686011970 Zn binding residues [ion binding]; other site 376686011971 substrate binding site [chemical binding]; other site 376686011972 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 376686011973 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 376686011974 alpha-galactosidase; Region: PLN02229 376686011975 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 376686011976 FlgD Ig-like domain; Region: FlgD_ig; cl15790 376686011977 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 376686011978 starch binding outer membrane protein SusD; Region: SusD; cd08977 376686011979 starch binding outer membrane protein SusD; Region: SusD; cl15876 376686011980 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686011981 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686011982 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 376686011983 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 376686011984 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 376686011985 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 376686011986 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; cl09200 376686011987 MFS/sugar transport protein; Region: MFS_2; pfam13347 376686011988 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 376686011989 putative substrate translocation pore; other site 376686011990 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 376686011991 active site 376686011992 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 376686011993 dimerization interface [polypeptide binding]; other site 376686011994 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 376686011995 putative active cleft [active] 376686011996 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; cl09200 376686011997 Endo-beta-mannanase [Carbohydrate transport and metabolism]; Region: COG3934 376686011998 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 376686011999 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 376686012000 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 376686012001 active site 376686012002 catalytic tetrad [active] 376686012003 Protein of unknown function (DUF433); Region: DUF433; cl01030 376686012004 Uncharacterized conserved protein [Function unknown]; Region: COG1656; cl09136 376686012005 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 376686012006 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 376686012007 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 376686012008 Fibronectin type III-like domain; Region: Fn3-like; cl15273 376686012009 Domain of unknown function (DUF303); Region: DUF303; pfam03629 376686012010 Endoglucanase E-like members of the SGNH hydrolase family; Endoglucanase E catalyzes the endohydrolysis of 1,4-beta-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans; Region: Endoglucanase_E_like; cd01831 376686012011 catalytic triad [active] 376686012012 active site 376686012013 oxyanion hole [active] 376686012014 NlpC/P60 family; Region: NLPC_P60; cl11438 376686012015 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 376686012016 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 376686012017 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 376686012018 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 376686012019 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 376686012020 dimer interface [polypeptide binding]; other site 376686012021 phosphorylation site [posttranslational modification] 376686012022 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 376686012023 ATP binding site [chemical binding]; other site 376686012024 Mg2+ binding site [ion binding]; other site 376686012025 G-X-G motif; other site 376686012026 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 376686012027 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 376686012028 active site 376686012029 phosphorylation site [posttranslational modification] 376686012030 intermolecular recognition site; other site 376686012031 dimerization interface [polypeptide binding]; other site 376686012032 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 376686012033 DNA binding site [nucleotide binding] 376686012034 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 376686012035 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 376686012036 B12 binding site [chemical binding]; other site 376686012037 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 376686012038 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 376686012039 metabolite-proton symporter; Region: 2A0106; TIGR00883 376686012040 putative substrate translocation pore; other site 376686012041 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 376686012042 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 376686012043 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 376686012044 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 376686012045 active site 376686012046 multimer interface [polypeptide binding]; other site 376686012047 Protein of unknown function (DUF721); Region: DUF721; cl02324 376686012048 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 376686012049 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 376686012050 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 376686012051 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686012052 Domain of unknown function (DUF4295); Region: DUF4295; pfam14128 376686012053 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 376686012054 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 376686012055 competence damage-inducible protein A; Provisional; Region: PRK00549 376686012056 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 376686012057 putative MPT binding site; other site 376686012058 Competence-damaged protein; Region: CinA; cl00666 376686012059 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 376686012060 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 376686012061 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 376686012062 active site 376686012063 substrate binding site [chemical binding]; other site 376686012064 catalytic site [active] 376686012065 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 376686012066 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 376686012067 E3 interaction surface; other site 376686012068 lipoyl attachment site [posttranslational modification]; other site 376686012069 e3 binding domain; Region: E3_binding; pfam02817 376686012070 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 376686012071 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 376686012072 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 376686012073 Probable Catalytic site; other site 376686012074 metal-binding site 376686012075 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 376686012076 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 376686012077 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 376686012078 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686012079 Bacterial sugar transferase; Region: Bac_transf; cl00939 376686012080 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 376686012081 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 376686012082 Walker A/P-loop; other site 376686012083 ATP binding site [chemical binding]; other site 376686012084 Q-loop/lid; other site 376686012085 ABC transporter signature motif; other site 376686012086 Walker B; other site 376686012087 D-loop; other site 376686012088 H-loop/switch region; other site 376686012089 ABC transporter; Region: ABC_tran_2; pfam12848 376686012090 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 376686012091 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 376686012092 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 376686012093 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 376686012094 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 376686012095 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 376686012096 Walker A/P-loop; other site 376686012097 ATP binding site [chemical binding]; other site 376686012098 Q-loop/lid; other site 376686012099 ABC transporter signature motif; other site 376686012100 Walker B; other site 376686012101 D-loop; other site 376686012102 H-loop/switch region; other site 376686012103 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 376686012104 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 376686012105 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 376686012106 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 376686012107 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 376686012108 nucleotide binding region [chemical binding]; other site 376686012109 ATP-binding site [chemical binding]; other site 376686012110 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 376686012111 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 376686012112 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 376686012113 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 376686012114 Cupin domain; Region: Cupin_2; cl09118 376686012115 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 376686012116 ligand-binding site [chemical binding]; other site 376686012117 NAD-dependent deacetylase; Provisional; Region: PRK00481 376686012118 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 376686012119 NAD+ binding site [chemical binding]; other site 376686012120 substrate binding site [chemical binding]; other site 376686012121 Zn binding site [ion binding]; other site 376686012122 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 376686012123 adenylosuccinate lyase; Provisional; Region: PRK09285 376686012124 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 376686012125 tetramer interface [polypeptide binding]; other site 376686012126 active site 376686012127 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 376686012128 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 376686012129 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 376686012130 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 376686012131 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 376686012132 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 376686012133 dimer interface [polypeptide binding]; other site 376686012134 decamer (pentamer of dimers) interface [polypeptide binding]; other site 376686012135 catalytic triad [active] 376686012136 Membrane transport protein; Region: Mem_trans; cl09117 376686012137 Helix-turn-helix domains; Region: HTH; cl00088 376686012138 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 376686012139 NADH(P)-binding; Region: NAD_binding_10; pfam13460 376686012140 NAD binding site [chemical binding]; other site 376686012141 substrate binding site [chemical binding]; other site 376686012142 putative active site [active] 376686012143 membrane ATPase/protein kinase; Provisional; Region: PRK09435 376686012144 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686012145 GTP/Mg2+ binding site [chemical binding]; other site 376686012146 G5 box; other site 376686012147 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 376686012148 Walker A; other site 376686012149 G1 box; other site 376686012150 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 376686012151 Sulfatase; Region: Sulfatase; cl10460 376686012152 multidrug efflux protein; Reviewed; Region: PRK01766 376686012153 MatE; Region: MatE; cl10513 376686012154 MatE; Region: MatE; cl10513 376686012155 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 376686012156 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 376686012157 active site 376686012158 phosphorylation site [posttranslational modification] 376686012159 intermolecular recognition site; other site 376686012160 dimerization interface [polypeptide binding]; other site 376686012161 LytTr DNA-binding domain; Region: LytTR; cl04498 376686012162 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 376686012163 Histidine kinase; Region: His_kinase; pfam06580 376686012164 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 376686012165 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 376686012166 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 376686012167 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 376686012168 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 376686012169 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 376686012170 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 376686012171 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 376686012172 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 376686012173 von Willebrand factor; Region: vWF_A; pfam12450 376686012174 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 376686012175 VWA subgroup: 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...; Region: vWA_subgroup; cd01465 376686012176 metal ion-dependent adhesion site (MIDAS); other site 376686012177 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 376686012178 Scramblase; Region: Scramblase; cl02043 376686012179 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 376686012180 classical (c) SDRs; Region: SDR_c; cd05233 376686012181 NAD(P) binding site [chemical binding]; other site 376686012182 active site 376686012183 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 376686012184 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 376686012185 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 376686012186 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 376686012187 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 376686012188 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 376686012189 motif II; other site 376686012190 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 376686012191 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 376686012192 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 376686012193 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 376686012194 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 376686012195 ATP binding site [chemical binding]; other site 376686012196 putative Mg++ binding site [ion binding]; other site 376686012197 Response regulator receiver domain; Region: Response_reg; pfam00072 376686012198 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 376686012199 active site 376686012200 phosphorylation site [posttranslational modification] 376686012201 intermolecular recognition site; other site 376686012202 dimerization interface [polypeptide binding]; other site 376686012203 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 376686012204 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 376686012205 Walker A motif; other site 376686012206 ATP binding site [chemical binding]; other site 376686012207 Walker B motif; other site 376686012208 arginine finger; other site 376686012209 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 376686012210 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 376686012211 This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity. In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily...; Region: ABC_putative_ATPase; cd03269 376686012212 Walker A/P-loop; other site 376686012213 ATP binding site [chemical binding]; other site 376686012214 Q-loop/lid; other site 376686012215 ABC transporter signature motif; other site 376686012216 Walker B; other site 376686012217 D-loop; other site 376686012218 H-loop/switch region; other site 376686012219 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 376686012220 chaperone protein DnaJ; Provisional; Region: PRK14289 376686012221 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 376686012222 HSP70 interaction site [polypeptide binding]; other site 376686012223 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 376686012224 Zn binding sites [ion binding]; other site 376686012225 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 376686012226 dimer interface [polypeptide binding]; other site 376686012227 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 376686012228 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 376686012229 dimer interface [polypeptide binding]; other site 376686012230 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 376686012231 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 376686012232 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 376686012233 dimer interface [polypeptide binding]; other site 376686012234 motif 1; other site 376686012235 active site 376686012236 motif 2; other site 376686012237 motif 3; other site 376686012238 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 376686012239 anticodon binding site; other site 376686012240 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 376686012241 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 376686012242 FtsX-like permease family; Region: FtsX; cl15850 376686012243 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 376686012244 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 376686012245 S-adenosylmethionine binding site [chemical binding]; other site 376686012246 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 376686012247 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 376686012248 Coenzyme A binding pocket [chemical binding]; other site