-- dump date 20140620_010131 -- class Genbank::misc_feature -- table misc_feature_note -- id note 931281000001 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 931281000002 Predicted membrane protein [Function unknown]; Region: COG2261 931281000003 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 931281000004 ATP-grasp domain; Region: ATP-grasp; pfam02222 931281000005 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 931281000006 cell density-dependent motility repressor; Provisional; Region: PRK10082 931281000007 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281000008 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 931281000009 dimerization interface [polypeptide binding]; other site 931281000010 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 931281000011 Aspartase; Region: Aspartase; cd01357 931281000012 active sites [active] 931281000013 tetramer interface [polypeptide binding]; other site 931281000014 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 931281000015 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 931281000016 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 931281000017 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 931281000018 active site 931281000019 Zn binding site [ion binding]; other site 931281000020 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 931281000021 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 931281000022 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 931281000023 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281000024 DNA-binding site [nucleotide binding]; DNA binding site 931281000025 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 931281000026 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281000027 homodimer interface [polypeptide binding]; other site 931281000028 catalytic residue [active] 931281000029 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 931281000030 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 931281000031 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 931281000032 Coenzyme A binding pocket [chemical binding]; other site 931281000033 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 931281000034 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 931281000035 pyruvate carboxylase subunit B; Validated; Region: PRK09282 931281000036 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 931281000037 active site 931281000038 catalytic residues [active] 931281000039 metal binding site [ion binding]; metal-binding site 931281000040 homodimer binding site [polypeptide binding]; other site 931281000041 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 931281000042 carboxyltransferase (CT) interaction site; other site 931281000043 biotinylation site [posttranslational modification]; other site 931281000044 pyruvate carboxylase subunit A; Validated; Region: PRK07178 931281000045 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 931281000046 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 931281000047 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 931281000048 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 931281000049 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281000050 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 931281000051 putative dimerization interface [polypeptide binding]; other site 931281000052 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 931281000053 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 931281000054 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 931281000055 putative active site [active] 931281000056 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 931281000057 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 931281000058 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 931281000059 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 931281000060 Part of AAA domain; Region: AAA_19; pfam13245 931281000061 Family description; Region: UvrD_C_2; pfam13538 931281000062 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 931281000063 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 931281000064 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 931281000065 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 931281000066 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 931281000067 pyridoxamine kinase; Validated; Region: PRK05756 931281000068 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 931281000069 pyridoxal binding site [chemical binding]; other site 931281000070 dimer interface [polypeptide binding]; other site 931281000071 ATP binding site [chemical binding]; other site 931281000072 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 931281000073 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 931281000074 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 931281000075 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 931281000076 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 931281000077 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 931281000078 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 931281000079 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 931281000080 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 931281000081 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 931281000082 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 931281000083 putative active site [active] 931281000084 catalytic site [active] 931281000085 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 931281000086 putative active site [active] 931281000087 catalytic site [active] 931281000088 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 931281000089 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 931281000090 S-adenosylmethionine binding site [chemical binding]; other site 931281000091 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06115 931281000092 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 931281000093 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 931281000094 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 931281000095 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 931281000096 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 931281000097 PYR/PP interface [polypeptide binding]; other site 931281000098 dimer interface [polypeptide binding]; other site 931281000099 TPP binding site [chemical binding]; other site 931281000100 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 931281000101 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 931281000102 TPP-binding site [chemical binding]; other site 931281000103 dimer interface [polypeptide binding]; other site 931281000104 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 931281000105 putative substrate translocation pore; other site 931281000106 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 931281000107 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 931281000108 NAD(P) binding site [chemical binding]; other site 931281000109 active site 931281000110 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 931281000111 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281000112 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 931281000113 dimerization interface [polypeptide binding]; other site 931281000114 substrate binding pocket [chemical binding]; other site 931281000115 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 931281000116 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 931281000117 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281000118 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 931281000119 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 931281000120 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 931281000121 classical (c) SDRs; Region: SDR_c; cd05233 931281000122 NAD(P) binding site [chemical binding]; other site 931281000123 active site 931281000124 classical (c) SDRs; Region: SDR_c; cd05233 931281000125 NAD(P) binding site [chemical binding]; other site 931281000126 active site 931281000127 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 931281000128 outer membrane porin, OprD family; Region: OprD; pfam03573 931281000129 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 931281000130 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 931281000131 inhibitor site; inhibition site 931281000132 active site 931281000133 dimer interface [polypeptide binding]; other site 931281000134 catalytic residue [active] 931281000135 benzoate transport; Region: 2A0115; TIGR00895 931281000136 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 931281000137 putative substrate translocation pore; other site 931281000138 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 931281000139 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 931281000140 dimerization interface [polypeptide binding]; other site 931281000141 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 931281000142 dimer interface [polypeptide binding]; other site 931281000143 phosphorylation site [posttranslational modification] 931281000144 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 931281000145 ATP binding site [chemical binding]; other site 931281000146 Mg2+ binding site [ion binding]; other site 931281000147 G-X-G motif; other site 931281000148 Transcriptional regulator [Transcription]; Region: IclR; COG1414 931281000149 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 931281000150 Bacterial transcriptional regulator; Region: IclR; pfam01614 931281000151 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 931281000152 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 931281000153 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 931281000154 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 931281000155 glutaminase active site [active] 931281000156 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 931281000157 dimer interface [polypeptide binding]; other site 931281000158 active site 931281000159 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 931281000160 dimer interface [polypeptide binding]; other site 931281000161 active site 931281000162 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 931281000163 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 931281000164 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 931281000165 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 931281000166 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 931281000167 Substrate binding site; other site 931281000168 Mg++ binding site; other site 931281000169 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 931281000170 active site 931281000171 substrate binding site [chemical binding]; other site 931281000172 CoA binding site [chemical binding]; other site 931281000173 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 931281000174 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 931281000175 gamma subunit interface [polypeptide binding]; other site 931281000176 epsilon subunit interface [polypeptide binding]; other site 931281000177 LBP interface [polypeptide binding]; other site 931281000178 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 931281000179 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 931281000180 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 931281000181 alpha subunit interaction interface [polypeptide binding]; other site 931281000182 Walker A motif; other site 931281000183 ATP binding site [chemical binding]; other site 931281000184 Walker B motif; other site 931281000185 inhibitor binding site; inhibition site 931281000186 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 931281000187 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 931281000188 core domain interface [polypeptide binding]; other site 931281000189 delta subunit interface [polypeptide binding]; other site 931281000190 epsilon subunit interface [polypeptide binding]; other site 931281000191 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 931281000192 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 931281000193 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 931281000194 beta subunit interaction interface [polypeptide binding]; other site 931281000195 Walker A motif; other site 931281000196 ATP binding site [chemical binding]; other site 931281000197 Walker B motif; other site 931281000198 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 931281000199 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 931281000200 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 931281000201 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 931281000202 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 931281000203 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 931281000204 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 931281000205 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 931281000206 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 931281000207 ParB-like nuclease domain; Region: ParBc; pfam02195 931281000208 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 931281000209 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 931281000210 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 931281000211 Magnesium ion binding site [ion binding]; other site 931281000212 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 931281000213 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 931281000214 S-adenosylmethionine binding site [chemical binding]; other site 931281000215 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 931281000216 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 931281000217 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 931281000218 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 931281000219 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 931281000220 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 931281000221 trmE is a tRNA modification GTPase; Region: trmE; cd04164 931281000222 G1 box; other site 931281000223 GTP/Mg2+ binding site [chemical binding]; other site 931281000224 Switch I region; other site 931281000225 G2 box; other site 931281000226 Switch II region; other site 931281000227 G3 box; other site 931281000228 G4 box; other site 931281000229 G5 box; other site 931281000230 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 931281000231 membrane protein insertase; Provisional; Region: PRK01318 931281000232 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 931281000233 ribonuclease P; Reviewed; Region: rnpA; PRK00396 931281000234 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 931281000235 DnaA N-terminal domain; Region: DnaA_N; pfam11638 931281000236 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 931281000237 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 931281000238 Walker A motif; other site 931281000239 ATP binding site [chemical binding]; other site 931281000240 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 931281000241 Walker B motif; other site 931281000242 arginine finger; other site 931281000243 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 931281000244 DnaA box-binding interface [nucleotide binding]; other site 931281000245 DNA polymerase III subunit beta; Validated; Region: PRK05643 931281000246 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 931281000247 putative DNA binding surface [nucleotide binding]; other site 931281000248 dimer interface [polypeptide binding]; other site 931281000249 beta-clamp/clamp loader binding surface; other site 931281000250 beta-clamp/translesion DNA polymerase binding surface; other site 931281000251 recombination protein F; Reviewed; Region: recF; PRK00064 931281000252 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281000253 Walker A/P-loop; other site 931281000254 ATP binding site [chemical binding]; other site 931281000255 Q-loop/lid; other site 931281000256 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281000257 ABC transporter signature motif; other site 931281000258 Walker B; other site 931281000259 D-loop; other site 931281000260 H-loop/switch region; other site 931281000261 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 931281000262 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 931281000263 Mg2+ binding site [ion binding]; other site 931281000264 G-X-G motif; other site 931281000265 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 931281000266 anchoring element; other site 931281000267 dimer interface [polypeptide binding]; other site 931281000268 ATP binding site [chemical binding]; other site 931281000269 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 931281000270 active site 931281000271 putative metal-binding site [ion binding]; other site 931281000272 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 931281000273 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 931281000274 PAS fold; Region: PAS_4; pfam08448 931281000275 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 931281000276 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 931281000277 Walker A motif; other site 931281000278 ATP binding site [chemical binding]; other site 931281000279 Walker B motif; other site 931281000280 arginine finger; other site 931281000281 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 931281000282 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 931281000283 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 931281000284 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 931281000285 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281000286 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281000287 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 931281000288 dimerization interface [polypeptide binding]; other site 931281000289 choline dehydrogenase; Validated; Region: PRK02106 931281000290 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 931281000291 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 931281000292 putative substrate translocation pore; other site 931281000293 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 931281000294 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 931281000295 putative acyl-acceptor binding pocket; other site 931281000296 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 931281000297 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 931281000298 active site 931281000299 motif I; other site 931281000300 motif II; other site 931281000301 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 931281000302 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 931281000303 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 931281000304 dimer interface [polypeptide binding]; other site 931281000305 motif 1; other site 931281000306 active site 931281000307 motif 2; other site 931281000308 motif 3; other site 931281000309 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 931281000310 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 931281000311 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 931281000312 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 931281000313 putative acyl-acceptor binding pocket; other site 931281000314 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 931281000315 TPR motif; other site 931281000316 TPR repeat; Region: TPR_11; pfam13414 931281000317 binding surface 931281000318 K+ potassium transporter; Region: K_trans; cl15781 931281000319 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 931281000320 TrkA-N domain; Region: TrkA_N; pfam02254 931281000321 TrkA-C domain; Region: TrkA_C; pfam02080 931281000322 TrkA-N domain; Region: TrkA_N; pfam02254 931281000323 TrkA-C domain; Region: TrkA_C; pfam02080 931281000324 16S rRNA methyltransferase B; Provisional; Region: PRK10901 931281000325 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 931281000326 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 931281000327 S-adenosylmethionine binding site [chemical binding]; other site 931281000328 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 931281000329 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 931281000330 putative active site [active] 931281000331 substrate binding site [chemical binding]; other site 931281000332 putative cosubstrate binding site; other site 931281000333 catalytic site [active] 931281000334 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 931281000335 substrate binding site [chemical binding]; other site 931281000336 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 931281000337 active site 931281000338 catalytic residues [active] 931281000339 metal binding site [ion binding]; metal-binding site 931281000340 DNA protecting protein DprA; Region: dprA; TIGR00732 931281000341 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 931281000342 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 931281000343 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 931281000344 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 931281000345 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 931281000346 NADP binding site [chemical binding]; other site 931281000347 dimer interface [polypeptide binding]; other site 931281000348 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 931281000349 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 931281000350 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 931281000351 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 931281000352 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 931281000353 shikimate binding site; other site 931281000354 NAD(P) binding site [chemical binding]; other site 931281000355 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 931281000356 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 931281000357 Sulfate transporter family; Region: Sulfate_transp; pfam00916 931281000358 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 931281000359 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 931281000360 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 931281000361 Sulfatase; Region: Sulfatase; cl17466 931281000362 choline-sulfatase; Region: chol_sulfatase; TIGR03417 931281000363 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 931281000364 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 931281000365 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281000366 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 931281000367 dimerization interface [polypeptide binding]; other site 931281000368 substrate binding pocket [chemical binding]; other site 931281000369 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 931281000370 NADH(P)-binding; Region: NAD_binding_10; pfam13460 931281000371 NAD(P) binding site [chemical binding]; other site 931281000372 active site 931281000373 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 931281000374 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 931281000375 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 931281000376 substrate binding site [chemical binding]; other site 931281000377 active site 931281000378 catalytic residues [active] 931281000379 heterodimer interface [polypeptide binding]; other site 931281000380 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 931281000381 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 931281000382 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281000383 catalytic residue [active] 931281000384 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 931281000385 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281000386 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 931281000387 dimerization interface [polypeptide binding]; other site 931281000388 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 931281000389 Dodecin; Region: Dodecin; pfam07311 931281000390 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 931281000391 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 931281000392 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 931281000393 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 931281000394 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 931281000395 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 931281000396 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 931281000397 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 931281000398 Eukaryotic phosphomannomutase; Region: PMM; cl17107 931281000399 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 931281000400 motif II; other site 931281000401 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 931281000402 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 931281000403 trimer interface [polypeptide binding]; other site 931281000404 putative metal binding site [ion binding]; other site 931281000405 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 931281000406 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 931281000407 active site 931281000408 Zn binding site [ion binding]; other site 931281000409 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 931281000410 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 931281000411 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 931281000412 Zn binding site [ion binding]; other site 931281000413 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 931281000414 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 931281000415 FeS/SAM binding site; other site 931281000416 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 931281000417 active site clefts [active] 931281000418 zinc binding site [ion binding]; other site 931281000419 dimer interface [polypeptide binding]; other site 931281000420 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 931281000421 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 931281000422 Sulfate transporter family; Region: Sulfate_transp; pfam00916 931281000423 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 931281000424 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 931281000425 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 931281000426 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 931281000427 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 931281000428 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 931281000429 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 931281000430 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 931281000431 Subunit I/III interface [polypeptide binding]; other site 931281000432 D-pathway; other site 931281000433 Subunit I/VIIc interface [polypeptide binding]; other site 931281000434 Subunit I/IV interface [polypeptide binding]; other site 931281000435 Subunit I/II interface [polypeptide binding]; other site 931281000436 Low-spin heme (heme a) binding site [chemical binding]; other site 931281000437 Subunit I/VIIa interface [polypeptide binding]; other site 931281000438 Subunit I/VIa interface [polypeptide binding]; other site 931281000439 Dimer interface; other site 931281000440 Putative water exit pathway; other site 931281000441 Binuclear center (heme a3/CuB) [ion binding]; other site 931281000442 K-pathway; other site 931281000443 Subunit I/Vb interface [polypeptide binding]; other site 931281000444 Putative proton exit pathway; other site 931281000445 Subunit I/VIb interface; other site 931281000446 Subunit I/VIc interface [polypeptide binding]; other site 931281000447 Electron transfer pathway; other site 931281000448 Subunit I/VIIIb interface [polypeptide binding]; other site 931281000449 Subunit I/VIIb interface [polypeptide binding]; other site 931281000450 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 931281000451 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 931281000452 Subunit III/VIIa interface [polypeptide binding]; other site 931281000453 Phospholipid binding site [chemical binding]; other site 931281000454 Subunit I/III interface [polypeptide binding]; other site 931281000455 Subunit III/VIb interface [polypeptide binding]; other site 931281000456 Subunit III/VIa interface; other site 931281000457 Subunit III/Vb interface [polypeptide binding]; other site 931281000458 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 931281000459 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 931281000460 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 931281000461 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 931281000462 UbiA prenyltransferase family; Region: UbiA; pfam01040 931281000463 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 931281000464 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 931281000465 Cu(I) binding site [ion binding]; other site 931281000466 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 931281000467 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 931281000468 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 931281000469 dimer interface [polypeptide binding]; other site 931281000470 conserved gate region; other site 931281000471 ABC-ATPase subunit interface; other site 931281000472 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 931281000473 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 931281000474 Walker A/P-loop; other site 931281000475 ATP binding site [chemical binding]; other site 931281000476 Q-loop/lid; other site 931281000477 ABC transporter signature motif; other site 931281000478 Walker B; other site 931281000479 D-loop; other site 931281000480 H-loop/switch region; other site 931281000481 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 931281000482 hydroperoxidase II; Provisional; Region: katE; PRK11249 931281000483 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 931281000484 tetramer interface [polypeptide binding]; other site 931281000485 heme binding pocket [chemical binding]; other site 931281000486 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 931281000487 domain interactions; other site 931281000488 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 931281000489 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 931281000490 dimer interface [polypeptide binding]; other site 931281000491 putative PBP binding regions; other site 931281000492 ABC-ATPase subunit interface; other site 931281000493 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 931281000494 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 931281000495 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 931281000496 metal binding site 2 [ion binding]; metal-binding site 931281000497 putative DNA binding helix; other site 931281000498 metal binding site 1 [ion binding]; metal-binding site 931281000499 dimer interface [polypeptide binding]; other site 931281000500 structural Zn2+ binding site [ion binding]; other site 931281000501 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 931281000502 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 931281000503 metal binding site [ion binding]; metal-binding site 931281000504 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 931281000505 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 931281000506 putative active site [active] 931281000507 putative substrate binding site [chemical binding]; other site 931281000508 ATP binding site [chemical binding]; other site 931281000509 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 931281000510 DNA polymerase I; Provisional; Region: PRK05755 931281000511 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 931281000512 active site 931281000513 metal binding site 1 [ion binding]; metal-binding site 931281000514 putative 5' ssDNA interaction site; other site 931281000515 metal binding site 3; metal-binding site 931281000516 metal binding site 2 [ion binding]; metal-binding site 931281000517 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 931281000518 putative DNA binding site [nucleotide binding]; other site 931281000519 putative metal binding site [ion binding]; other site 931281000520 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 931281000521 active site 931281000522 catalytic site [active] 931281000523 substrate binding site [chemical binding]; other site 931281000524 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 931281000525 active site 931281000526 DNA binding site [nucleotide binding] 931281000527 catalytic site [active] 931281000528 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 931281000529 G1 box; other site 931281000530 GTP/Mg2+ binding site [chemical binding]; other site 931281000531 Switch I region; other site 931281000532 G2 box; other site 931281000533 G3 box; other site 931281000534 Switch II region; other site 931281000535 G4 box; other site 931281000536 G5 box; other site 931281000537 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 931281000538 Cytochrome c553 [Energy production and conversion]; Region: COG2863 931281000539 Cytochrome c; Region: Cytochrom_C; cl11414 931281000540 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 931281000541 catalytic residues [active] 931281000542 hinge region; other site 931281000543 alpha helical domain; other site 931281000544 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 931281000545 putative catalytic site [active] 931281000546 putative metal binding site [ion binding]; other site 931281000547 putative phosphate binding site [ion binding]; other site 931281000548 putative catalytic site [active] 931281000549 putative phosphate binding site [ion binding]; other site 931281000550 putative metal binding site [ion binding]; other site 931281000551 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 931281000552 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281000553 metal binding site [ion binding]; metal-binding site 931281000554 active site 931281000555 I-site; other site 931281000556 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 931281000557 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 931281000558 amidase catalytic site [active] 931281000559 Zn binding residues [ion binding]; other site 931281000560 substrate binding site [chemical binding]; other site 931281000561 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 931281000562 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 931281000563 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 931281000564 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 931281000565 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 931281000566 dimerization interface [polypeptide binding]; other site 931281000567 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 931281000568 dimer interface [polypeptide binding]; other site 931281000569 phosphorylation site [posttranslational modification] 931281000570 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 931281000571 ATP binding site [chemical binding]; other site 931281000572 Mg2+ binding site [ion binding]; other site 931281000573 G-X-G motif; other site 931281000574 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 931281000575 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281000576 active site 931281000577 phosphorylation site [posttranslational modification] 931281000578 intermolecular recognition site; other site 931281000579 dimerization interface [polypeptide binding]; other site 931281000580 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 931281000581 Walker A motif; other site 931281000582 ATP binding site [chemical binding]; other site 931281000583 Walker B motif; other site 931281000584 arginine finger; other site 931281000585 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 931281000586 BON domain; Region: BON; pfam04972 931281000587 BON domain; Region: BON; pfam04972 931281000588 BON domain; Region: BON; pfam04972 931281000589 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; pfam08816 931281000590 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 931281000591 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 931281000592 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 931281000593 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 931281000594 Protein of unknown function (DUF330); Region: DUF330; cl01135 931281000595 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 931281000596 mce related protein; Region: MCE; pfam02470 931281000597 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 931281000598 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281000599 Walker A/P-loop; other site 931281000600 ATP binding site [chemical binding]; other site 931281000601 Q-loop/lid; other site 931281000602 ABC transporter signature motif; other site 931281000603 Walker B; other site 931281000604 D-loop; other site 931281000605 H-loop/switch region; other site 931281000606 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 931281000607 Permease; Region: Permease; pfam02405 931281000608 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 931281000609 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 931281000610 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 931281000611 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 931281000612 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 931281000613 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 931281000614 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 931281000615 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 931281000616 Citrate transporter; Region: CitMHS; pfam03600 931281000617 Uncharacterized conserved protein [Function unknown]; Region: COG3791 931281000618 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 931281000619 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 931281000620 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 931281000621 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 931281000622 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 931281000623 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 931281000624 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 931281000625 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 931281000626 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 931281000627 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 931281000628 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 931281000629 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 931281000630 ligand binding site [chemical binding]; other site 931281000631 homodimer interface [polypeptide binding]; other site 931281000632 NAD(P) binding site [chemical binding]; other site 931281000633 trimer interface B [polypeptide binding]; other site 931281000634 trimer interface A [polypeptide binding]; other site 931281000635 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 931281000636 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281000637 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 931281000638 dimerization interface [polypeptide binding]; other site 931281000639 substrate binding pocket [chemical binding]; other site 931281000640 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 931281000641 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 931281000642 FAD binding site [chemical binding]; other site 931281000643 substrate binding pocket [chemical binding]; other site 931281000644 catalytic base [active] 931281000645 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 931281000646 CoA-transferase family III; Region: CoA_transf_3; pfam02515 931281000647 Secretin and TonB N terminus short domain; Region: STN; smart00965 931281000648 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 931281000649 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 931281000650 N-terminal plug; other site 931281000651 ligand-binding site [chemical binding]; other site 931281000652 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 931281000653 FecR protein; Region: FecR; pfam04773 931281000654 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 931281000655 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 931281000656 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 931281000657 DNA binding residues [nucleotide binding] 931281000658 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 931281000659 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281000660 DNA-binding site [nucleotide binding]; DNA binding site 931281000661 FCD domain; Region: FCD; pfam07729 931281000662 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 931281000663 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 931281000664 dimerization interface [polypeptide binding]; other site 931281000665 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 931281000666 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281000667 metal binding site [ion binding]; metal-binding site 931281000668 active site 931281000669 I-site; other site 931281000670 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 931281000671 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 931281000672 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 931281000673 HlyD family secretion protein; Region: HlyD_3; pfam13437 931281000674 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 931281000675 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 931281000676 putative active site [active] 931281000677 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 931281000678 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 931281000679 Walker A/P-loop; other site 931281000680 ATP binding site [chemical binding]; other site 931281000681 Q-loop/lid; other site 931281000682 ABC transporter signature motif; other site 931281000683 Walker B; other site 931281000684 D-loop; other site 931281000685 H-loop/switch region; other site 931281000686 Calx-beta domain; Region: Calx-beta; cl02522 931281000687 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 931281000688 metal ion-dependent adhesion site (MIDAS); other site 931281000689 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 931281000690 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 931281000691 WYL domain; Region: WYL; pfam13280 931281000692 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 931281000693 Sel1-like repeats; Region: SEL1; smart00671 931281000694 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 931281000695 MarR family; Region: MarR_2; cl17246 931281000696 Fusaric acid resistance protein family; Region: FUSC; pfam04632 931281000697 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 931281000698 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 931281000699 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 931281000700 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 931281000701 HlyD family secretion protein; Region: HlyD_3; pfam13437 931281000702 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 931281000703 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 931281000704 Cytochrome c; Region: Cytochrom_C; pfam00034 931281000705 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 931281000706 TIGR02647 family protein; Region: DNA 931281000707 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 931281000708 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 931281000709 C-terminal domain interface [polypeptide binding]; other site 931281000710 GSH binding site (G-site) [chemical binding]; other site 931281000711 dimer interface [polypeptide binding]; other site 931281000712 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 931281000713 N-terminal domain interface [polypeptide binding]; other site 931281000714 argininosuccinate lyase; Provisional; Region: PRK00855 931281000715 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 931281000716 active sites [active] 931281000717 tetramer interface [polypeptide binding]; other site 931281000718 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 931281000719 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281000720 active site 931281000721 phosphorylation site [posttranslational modification] 931281000722 intermolecular recognition site; other site 931281000723 dimerization interface [polypeptide binding]; other site 931281000724 LytTr DNA-binding domain; Region: LytTR; pfam04397 931281000725 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 931281000726 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 931281000727 domain interfaces; other site 931281000728 active site 931281000729 uroporphyrinogen-III synthase; Validated; Region: PRK05752 931281000730 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 931281000731 active site 931281000732 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 931281000733 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 931281000734 HemY protein N-terminus; Region: HemY_N; pfam07219 931281000735 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 931281000736 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 931281000737 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 931281000738 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 931281000739 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 931281000740 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 931281000741 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 931281000742 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281000743 Walker A/P-loop; other site 931281000744 ATP binding site [chemical binding]; other site 931281000745 Q-loop/lid; other site 931281000746 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 931281000747 ABC transporter signature motif; other site 931281000748 Walker B; other site 931281000749 D-loop; other site 931281000750 ABC transporter; Region: ABC_tran_2; pfam12848 931281000751 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 931281000752 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 931281000753 Mechanosensitive ion channel; Region: MS_channel; pfam00924 931281000754 LysE type translocator; Region: LysE; cl00565 931281000755 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 931281000756 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 931281000757 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 931281000758 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 931281000759 dimer interface [polypeptide binding]; other site 931281000760 active site residues [active] 931281000761 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 931281000762 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 931281000763 putative deacylase active site [active] 931281000764 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 931281000765 FOG: CBS domain [General function prediction only]; Region: COG0517 931281000766 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 931281000767 hypothetical protein; Provisional; Region: PRK06156 931281000768 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 931281000769 active site 931281000770 metal binding site [ion binding]; metal-binding site 931281000771 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 931281000772 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 931281000773 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 931281000774 tetramerization interface [polypeptide binding]; other site 931281000775 NAD(P) binding site [chemical binding]; other site 931281000776 catalytic residues [active] 931281000777 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 931281000778 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 931281000779 inhibitor-cofactor binding pocket; inhibition site 931281000780 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281000781 catalytic residue [active] 931281000782 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 931281000783 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281000784 active site 931281000785 phosphorylation site [posttranslational modification] 931281000786 intermolecular recognition site; other site 931281000787 dimerization interface [polypeptide binding]; other site 931281000788 HDOD domain; Region: HDOD; pfam08668 931281000789 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 931281000790 PAS fold; Region: PAS_3; pfam08447 931281000791 putative active site [active] 931281000792 heme pocket [chemical binding]; other site 931281000793 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 931281000794 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281000795 metal binding site [ion binding]; metal-binding site 931281000796 active site 931281000797 I-site; other site 931281000798 Fatty acid desaturase; Region: FA_desaturase; pfam00487 931281000799 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 931281000800 Di-iron ligands [ion binding]; other site 931281000801 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 931281000802 Transposase; Region: DDE_Tnp_ISL3; pfam01610 931281000803 RNase II stability modulator; Provisional; Region: PRK10060 931281000804 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 931281000805 putative active site [active] 931281000806 heme pocket [chemical binding]; other site 931281000807 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281000808 metal binding site [ion binding]; metal-binding site 931281000809 active site 931281000810 I-site; other site 931281000811 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 931281000812 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 931281000813 dimer interface [polypeptide binding]; other site 931281000814 conserved gate region; other site 931281000815 putative PBP binding loops; other site 931281000816 ABC-ATPase subunit interface; other site 931281000817 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 931281000818 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 931281000819 Walker A/P-loop; other site 931281000820 ATP binding site [chemical binding]; other site 931281000821 Q-loop/lid; other site 931281000822 ABC transporter signature motif; other site 931281000823 Walker B; other site 931281000824 D-loop; other site 931281000825 H-loop/switch region; other site 931281000826 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 931281000827 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 931281000828 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 931281000829 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 931281000830 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 931281000831 active site 931281000832 non-prolyl cis peptide bond; other site 931281000833 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 931281000834 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 931281000835 active site 931281000836 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 931281000837 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 931281000838 active site 931281000839 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 931281000840 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 931281000841 Walker A/P-loop; other site 931281000842 ATP binding site [chemical binding]; other site 931281000843 Q-loop/lid; other site 931281000844 ABC transporter signature motif; other site 931281000845 Walker B; other site 931281000846 D-loop; other site 931281000847 H-loop/switch region; other site 931281000848 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 931281000849 dimer interface [polypeptide binding]; other site 931281000850 conserved gate region; other site 931281000851 putative PBP binding loops; other site 931281000852 ABC-ATPase subunit interface; other site 931281000853 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 931281000854 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281000855 substrate binding pocket [chemical binding]; other site 931281000856 membrane-bound complex binding site; other site 931281000857 hinge residues; other site 931281000858 serine O-acetyltransferase; Region: cysE; TIGR01172 931281000859 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 931281000860 trimer interface [polypeptide binding]; other site 931281000861 active site 931281000862 substrate binding site [chemical binding]; other site 931281000863 CoA binding site [chemical binding]; other site 931281000864 BCCT family transporter; Region: BCCT; cl00569 931281000865 BCCT family transporter; Region: BCCT; cl00569 931281000866 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 931281000867 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 931281000868 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 931281000869 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 931281000870 dimer interface [polypeptide binding]; other site 931281000871 conserved gate region; other site 931281000872 putative PBP binding loops; other site 931281000873 ABC-ATPase subunit interface; other site 931281000874 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 931281000875 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 931281000876 Walker A/P-loop; other site 931281000877 ATP binding site [chemical binding]; other site 931281000878 Q-loop/lid; other site 931281000879 ABC transporter signature motif; other site 931281000880 Walker B; other site 931281000881 D-loop; other site 931281000882 H-loop/switch region; other site 931281000883 taurine ABC transporter, periplasmic binding protein; Region: taurine_ABC_bnd; TIGR01729 931281000884 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281000885 substrate binding pocket [chemical binding]; other site 931281000886 membrane-bound complex binding site; other site 931281000887 hinge residues; other site 931281000888 outer membrane porin, OprD family; Region: OprD; pfam03573 931281000889 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 931281000890 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 931281000891 dimer interface [polypeptide binding]; other site 931281000892 decamer (pentamer of dimers) interface [polypeptide binding]; other site 931281000893 catalytic triad [active] 931281000894 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 931281000895 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 931281000896 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 931281000897 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281000898 substrate binding pocket [chemical binding]; other site 931281000899 membrane-bound complex binding site; other site 931281000900 hinge residues; other site 931281000901 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 931281000902 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 931281000903 active site 931281000904 dimer interface [polypeptide binding]; other site 931281000905 non-prolyl cis peptide bond; other site 931281000906 insertion regions; other site 931281000907 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 931281000908 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 931281000909 dimer interface [polypeptide binding]; other site 931281000910 conserved gate region; other site 931281000911 putative PBP binding loops; other site 931281000912 ABC-ATPase subunit interface; other site 931281000913 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 931281000914 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 931281000915 Walker A/P-loop; other site 931281000916 ATP binding site [chemical binding]; other site 931281000917 Q-loop/lid; other site 931281000918 ABC transporter signature motif; other site 931281000919 Walker B; other site 931281000920 D-loop; other site 931281000921 H-loop/switch region; other site 931281000922 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 931281000923 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 931281000924 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 931281000925 glutamate--cysteine ligase; Provisional; Region: PRK02107 931281000926 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 931281000927 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 931281000928 CoenzymeA binding site [chemical binding]; other site 931281000929 subunit interaction site [polypeptide binding]; other site 931281000930 PHB binding site; other site 931281000931 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 931281000932 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 931281000933 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 931281000934 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 931281000935 RNA binding site [nucleotide binding]; other site 931281000936 osmolarity response regulator; Provisional; Region: ompR; PRK09468 931281000937 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281000938 active site 931281000939 phosphorylation site [posttranslational modification] 931281000940 intermolecular recognition site; other site 931281000941 dimerization interface [polypeptide binding]; other site 931281000942 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 931281000943 DNA binding site [nucleotide binding] 931281000944 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 931281000945 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 931281000946 dimerization interface [polypeptide binding]; other site 931281000947 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 931281000948 ATP binding site [chemical binding]; other site 931281000949 Mg2+ binding site [ion binding]; other site 931281000950 G-X-G motif; other site 931281000951 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 931281000952 RimK-like ATP-grasp domain; Region: RimK; pfam08443 931281000953 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 931281000954 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 931281000955 RNA binding surface [nucleotide binding]; other site 931281000956 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 931281000957 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 931281000958 active site 931281000959 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 931281000960 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 931281000961 dimerization interface [polypeptide binding]; other site 931281000962 domain crossover interface; other site 931281000963 redox-dependent activation switch; other site 931281000964 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 931281000965 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 931281000966 active site 931281000967 substrate-binding site [chemical binding]; other site 931281000968 metal-binding site [ion binding] 931281000969 ATP binding site [chemical binding]; other site 931281000970 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 931281000971 active site 931281000972 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 931281000973 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 931281000974 putative molybdopterin cofactor binding site [chemical binding]; other site 931281000975 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 931281000976 putative molybdopterin cofactor binding site; other site 931281000977 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 931281000978 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 931281000979 BON domain; Region: BON; pfam04972 931281000980 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 931281000981 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 931281000982 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 931281000983 motif II; other site 931281000984 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 931281000985 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 931281000986 dimer interface [polypeptide binding]; other site 931281000987 ADP-ribose binding site [chemical binding]; other site 931281000988 active site 931281000989 nudix motif; other site 931281000990 metal binding site [ion binding]; metal-binding site 931281000991 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 931281000992 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 931281000993 active site 931281000994 thioesterase domain, putative; Region: yiiD_Cterm; TIGR02447 931281000995 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 931281000996 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281000997 active site 931281000998 phosphorylation site [posttranslational modification] 931281000999 intermolecular recognition site; other site 931281001000 dimerization interface [polypeptide binding]; other site 931281001001 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 931281001002 Walker A motif; other site 931281001003 ATP binding site [chemical binding]; other site 931281001004 Walker B motif; other site 931281001005 arginine finger; other site 931281001006 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 931281001007 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 931281001008 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 931281001009 dimer interface [polypeptide binding]; other site 931281001010 phosphorylation site [posttranslational modification] 931281001011 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 931281001012 ATP binding site [chemical binding]; other site 931281001013 G-X-G motif; other site 931281001014 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 931281001015 agmatine deiminase; Provisional; Region: PRK13551 931281001016 agmatine deiminase; Region: agmatine_aguA; TIGR03380 931281001017 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 931281001018 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 931281001019 N-terminal plug; other site 931281001020 ligand-binding site [chemical binding]; other site 931281001021 outer membrane porin, OprD family; Region: OprD; pfam03573 931281001022 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 931281001023 Transposase; Region: HTH_Tnp_1; cl17663 931281001024 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 931281001025 Integrase core domain; Region: rve; pfam00665 931281001026 Integrase core domain; Region: rve_2; pfam13333 931281001027 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 931281001028 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 931281001029 active site 931281001030 FMN binding site [chemical binding]; other site 931281001031 substrate binding site [chemical binding]; other site 931281001032 3Fe-4S cluster binding site [ion binding]; other site 931281001033 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 931281001034 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 931281001035 ATP binding site [chemical binding]; other site 931281001036 Mg2+ binding site [ion binding]; other site 931281001037 G-X-G motif; other site 931281001038 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 931281001039 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281001040 active site 931281001041 phosphorylation site [posttranslational modification] 931281001042 intermolecular recognition site; other site 931281001043 dimerization interface [polypeptide binding]; other site 931281001044 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 931281001045 DNA binding site [nucleotide binding] 931281001046 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 931281001047 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 931281001048 N-terminal plug; other site 931281001049 ligand-binding site [chemical binding]; other site 931281001050 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 931281001051 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 931281001052 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281001053 metal binding site [ion binding]; metal-binding site 931281001054 active site 931281001055 I-site; other site 931281001056 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 931281001057 Methyltransferase domain; Region: Methyltransf_32; pfam13679 931281001058 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 931281001059 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 931281001060 dimer interface [polypeptide binding]; other site 931281001061 conserved gate region; other site 931281001062 putative PBP binding loops; other site 931281001063 ABC-ATPase subunit interface; other site 931281001064 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 931281001065 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 931281001066 dimer interface [polypeptide binding]; other site 931281001067 conserved gate region; other site 931281001068 putative PBP binding loops; other site 931281001069 ABC-ATPase subunit interface; other site 931281001070 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 931281001071 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281001072 substrate binding pocket [chemical binding]; other site 931281001073 membrane-bound complex binding site; other site 931281001074 hinge residues; other site 931281001075 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 931281001076 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 931281001077 Walker A/P-loop; other site 931281001078 ATP binding site [chemical binding]; other site 931281001079 Q-loop/lid; other site 931281001080 ABC transporter signature motif; other site 931281001081 Walker B; other site 931281001082 D-loop; other site 931281001083 H-loop/switch region; other site 931281001084 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 931281001085 oxidative damage protection protein; Provisional; Region: PRK05408 931281001086 adenine DNA glycosylase; Provisional; Region: PRK10880 931281001087 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 931281001088 minor groove reading motif; other site 931281001089 helix-hairpin-helix signature motif; other site 931281001090 substrate binding pocket [chemical binding]; other site 931281001091 active site 931281001092 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 931281001093 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 931281001094 DNA binding and oxoG recognition site [nucleotide binding] 931281001095 AsmA family; Region: AsmA; pfam05170 931281001096 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 931281001097 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 931281001098 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 931281001099 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 931281001100 putative active site pocket [active] 931281001101 4-fold oligomerization interface [polypeptide binding]; other site 931281001102 metal binding residues [ion binding]; metal-binding site 931281001103 3-fold/trimer interface [polypeptide binding]; other site 931281001104 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 931281001105 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 931281001106 putative active site [active] 931281001107 oxyanion strand; other site 931281001108 catalytic triad [active] 931281001109 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 931281001110 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 931281001111 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 931281001112 catalytic residues [active] 931281001113 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 931281001114 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 931281001115 substrate binding site [chemical binding]; other site 931281001116 glutamase interaction surface [polypeptide binding]; other site 931281001117 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 931281001118 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281001119 Walker A/P-loop; other site 931281001120 ATP binding site [chemical binding]; other site 931281001121 Q-loop/lid; other site 931281001122 ABC transporter signature motif; other site 931281001123 Walker B; other site 931281001124 D-loop; other site 931281001125 H-loop/switch region; other site 931281001126 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 931281001127 dimer interface [polypeptide binding]; other site 931281001128 conserved gate region; other site 931281001129 putative PBP binding loops; other site 931281001130 ABC-ATPase subunit interface; other site 931281001131 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 931281001132 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 931281001133 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 931281001134 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 931281001135 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 931281001136 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 931281001137 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 931281001138 conserved cys residue [active] 931281001139 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281001140 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 931281001141 active site 931281001142 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 931281001143 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 931281001144 putative sugar binding sites [chemical binding]; other site 931281001145 Q-X-W motif; other site 931281001146 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 931281001147 active site 931281001148 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 931281001149 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 931281001150 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 931281001151 Uncharacterized conserved protein [Function unknown]; Region: COG3246 931281001152 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 931281001153 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 931281001154 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 931281001155 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 931281001156 conserved cys residue [active] 931281001157 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281001158 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 931281001159 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 931281001160 Membrane dipeptidase (Peptidase family M19); Region: Peptidase_M19; pfam01244 931281001161 active site 931281001162 V4R domain; Region: V4R; cl15268 931281001163 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 931281001164 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 931281001165 putative active site [active] 931281001166 putative FMN binding site [chemical binding]; other site 931281001167 putative substrate binding site [chemical binding]; other site 931281001168 putative catalytic residue [active] 931281001169 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 931281001170 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 931281001171 Cysteine-rich domain; Region: CCG; pfam02754 931281001172 Cysteine-rich domain; Region: CCG; pfam02754 931281001173 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 931281001174 Ligand Binding Site [chemical binding]; other site 931281001175 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 931281001176 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 931281001177 Electron transfer flavoprotein, beta subunit [Energy production and conversion]; Region: FixA; COG2086 931281001178 Ligand Binding Site [chemical binding]; other site 931281001179 Electron transfer flavoprotein domain; Region: ETF; pfam01012 931281001180 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 931281001181 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 931281001182 [2Fe-2S] cluster binding site [ion binding]; other site 931281001183 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 931281001184 putative alpha subunit interface [polypeptide binding]; other site 931281001185 putative active site [active] 931281001186 putative substrate binding site [chemical binding]; other site 931281001187 Fe binding site [ion binding]; other site 931281001188 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 931281001189 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 931281001190 FAD binding pocket [chemical binding]; other site 931281001191 FAD binding motif [chemical binding]; other site 931281001192 phosphate binding motif [ion binding]; other site 931281001193 beta-alpha-beta structure motif; other site 931281001194 NAD binding pocket [chemical binding]; other site 931281001195 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 931281001196 catalytic loop [active] 931281001197 iron binding site [ion binding]; other site 931281001198 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 931281001199 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 931281001200 HAMP domain; Region: HAMP; pfam00672 931281001201 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 931281001202 dimer interface [polypeptide binding]; other site 931281001203 putative CheW interface [polypeptide binding]; other site 931281001204 Cell division protein ZapA; Region: ZapA; pfam05164 931281001205 Cache domain; Region: Cache_1; pfam02743 931281001206 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 931281001207 dimerization interface [polypeptide binding]; other site 931281001208 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 931281001209 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 931281001210 dimer interface [polypeptide binding]; other site 931281001211 putative CheW interface [polypeptide binding]; other site 931281001212 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 931281001213 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 931281001214 tetramer interface [polypeptide binding]; other site 931281001215 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281001216 catalytic residue [active] 931281001217 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 931281001218 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 931281001219 dimer interface [polypeptide binding]; other site 931281001220 active site 931281001221 glycine-pyridoxal phosphate binding site [chemical binding]; other site 931281001222 folate binding site [chemical binding]; other site 931281001223 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 931281001224 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 931281001225 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 931281001226 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 931281001227 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 931281001228 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 931281001229 Sarcosine oxidase, gamma subunit family; Region: SoxG; pfam04268 931281001230 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 931281001231 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 931281001232 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 931281001233 putative active site [active] 931281001234 putative substrate binding site [chemical binding]; other site 931281001235 putative cosubstrate binding site; other site 931281001236 catalytic site [active] 931281001237 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 931281001238 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 931281001239 NAD binding site [chemical binding]; other site 931281001240 catalytic Zn binding site [ion binding]; other site 931281001241 structural Zn binding site [ion binding]; other site 931281001242 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 931281001243 amino acid transporter; Region: 2A0306; TIGR00909 931281001244 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 931281001245 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 931281001246 putative acyl-acceptor binding pocket; other site 931281001247 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 931281001248 DNA-binding response regulator CreB; Provisional; Region: PRK11083 931281001249 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281001250 active site 931281001251 phosphorylation site [posttranslational modification] 931281001252 intermolecular recognition site; other site 931281001253 dimerization interface [polypeptide binding]; other site 931281001254 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 931281001255 DNA binding site [nucleotide binding] 931281001256 sensory histidine kinase CreC; Provisional; Region: PRK11100 931281001257 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 931281001258 dimerization interface [polypeptide binding]; other site 931281001259 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 931281001260 dimer interface [polypeptide binding]; other site 931281001261 phosphorylation site [posttranslational modification] 931281001262 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 931281001263 ATP binding site [chemical binding]; other site 931281001264 G-X-G motif; other site 931281001265 inner membrane protein; Provisional; Region: PRK11715 931281001266 putative glutathione S-transferase; Provisional; Region: PRK10357 931281001267 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 931281001268 putative C-terminal domain interface [polypeptide binding]; other site 931281001269 putative GSH binding site (G-site) [chemical binding]; other site 931281001270 putative dimer interface [polypeptide binding]; other site 931281001271 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 931281001272 dimer interface [polypeptide binding]; other site 931281001273 N-terminal domain interface [polypeptide binding]; other site 931281001274 putative substrate binding pocket (H-site) [chemical binding]; other site 931281001275 methionine sulfoxide reductase A; Provisional; Region: PRK00058 931281001276 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 931281001277 GAF domain; Region: GAF; pfam01590 931281001278 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 931281001279 PAS domain; Region: PAS_9; pfam13426 931281001280 putative active site [active] 931281001281 heme pocket [chemical binding]; other site 931281001282 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 931281001283 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281001284 metal binding site [ion binding]; metal-binding site 931281001285 active site 931281001286 I-site; other site 931281001287 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 931281001288 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 931281001289 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 931281001290 E3 interaction surface; other site 931281001291 lipoyl attachment site [posttranslational modification]; other site 931281001292 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 931281001293 E3 interaction surface; other site 931281001294 lipoyl attachment site [posttranslational modification]; other site 931281001295 e3 binding domain; Region: E3_binding; pfam02817 931281001296 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 931281001297 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 931281001298 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 931281001299 dimer interface [polypeptide binding]; other site 931281001300 TPP-binding site [chemical binding]; other site 931281001301 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 931281001302 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 931281001303 metal binding triad; other site 931281001304 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 931281001305 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 931281001306 metal binding triad; other site 931281001307 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 931281001308 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 931281001309 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 931281001310 putative active site [active] 931281001311 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 931281001312 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 931281001313 putative active site [active] 931281001314 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 931281001315 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 931281001316 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 931281001317 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 931281001318 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 931281001319 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 931281001320 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 931281001321 active site 931281001322 ATP binding site [chemical binding]; other site 931281001323 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 931281001324 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 931281001325 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 931281001326 Secretin and TonB N terminus short domain; Region: STN; smart00965 931281001327 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 931281001328 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 931281001329 N-terminal plug; other site 931281001330 ligand-binding site [chemical binding]; other site 931281001331 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 931281001332 FecR protein; Region: FecR; pfam04773 931281001333 RNA polymerase sigma factor; Reviewed; Region: PRK12523 931281001334 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 931281001335 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 931281001336 DNA binding residues [nucleotide binding] 931281001337 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 931281001338 active site 931281001339 catalytic site [active] 931281001340 substrate binding site [chemical binding]; other site 931281001341 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 931281001342 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 931281001343 ligand binding site [chemical binding]; other site 931281001344 flexible hinge region; other site 931281001345 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 931281001346 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 931281001347 metal binding triad; other site 931281001348 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281001349 Response regulator receiver domain; Region: Response_reg; pfam00072 931281001350 active site 931281001351 phosphorylation site [posttranslational modification] 931281001352 intermolecular recognition site; other site 931281001353 dimerization interface [polypeptide binding]; other site 931281001354 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 931281001355 active site 931281001356 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 931281001357 ACT domain; Region: ACT_6; pfam13740 931281001358 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 931281001359 Predicted permeases [General function prediction only]; Region: RarD; COG2962 931281001360 potential frameshift: common BLAST hit: gi|148545640|ref|YP_001265742.1| serine/threonine protein kinase 931281001361 serine/threonine protein kinase; Provisional; Region: PRK11768 931281001362 serine/threonine protein kinase; Provisional; Region: PRK11768 931281001363 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 931281001364 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 931281001365 TOBE domain; Region: TOBE; cl01440 931281001366 DNA utilization protein GntX; Provisional; Region: PRK11595 931281001367 biotin synthase; Provisional; Region: PRK15108 931281001368 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 931281001369 FeS/SAM binding site; other site 931281001370 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 931281001371 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 931281001372 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 931281001373 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 931281001374 catalytic residue [active] 931281001375 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 931281001376 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 931281001377 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 931281001378 S-adenosylmethionine binding site [chemical binding]; other site 931281001379 AAA domain; Region: AAA_26; pfam13500 931281001380 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 931281001381 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 931281001382 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 931281001383 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 931281001384 active site 931281001385 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 931281001386 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 931281001387 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281001388 metal binding site [ion binding]; metal-binding site 931281001389 active site 931281001390 I-site; other site 931281001391 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 931281001392 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 931281001393 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 931281001394 active site 931281001395 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 931281001396 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281001397 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281001398 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 931281001399 dimerization interface [polypeptide binding]; other site 931281001400 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 931281001401 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 931281001402 inhibitor-cofactor binding pocket; inhibition site 931281001403 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281001404 catalytic residue [active] 931281001405 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 931281001406 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 931281001407 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 931281001408 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 931281001409 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 931281001410 FeS/SAM binding site; other site 931281001411 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 931281001412 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 931281001413 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 931281001414 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 931281001415 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 931281001416 coenzyme PQQ biosynthesis probable peptidase PqqF; Region: PQQ_syn_pqqF; TIGR02110 931281001417 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 931281001418 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 931281001419 Predicted amidohydrolase [General function prediction only]; Region: COG0388 931281001420 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 931281001421 putative active site [active] 931281001422 catalytic triad [active] 931281001423 putative dimer interface [polypeptide binding]; other site 931281001424 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 931281001425 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 931281001426 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 931281001427 putative DNA binding site [nucleotide binding]; other site 931281001428 putative Zn2+ binding site [ion binding]; other site 931281001429 AsnC family; Region: AsnC_trans_reg; pfam01037 931281001430 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 931281001431 trimer interface [polypeptide binding]; other site 931281001432 active site 931281001433 substrate binding site [chemical binding]; other site 931281001434 CoA binding site [chemical binding]; other site 931281001435 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 931281001436 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281001437 substrate binding pocket [chemical binding]; other site 931281001438 membrane-bound complex binding site; other site 931281001439 hinge residues; other site 931281001440 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 931281001441 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 931281001442 putative active site [active] 931281001443 heme pocket [chemical binding]; other site 931281001444 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 931281001445 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 931281001446 putative active site [active] 931281001447 heme pocket [chemical binding]; other site 931281001448 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 931281001449 putative active site [active] 931281001450 heme pocket [chemical binding]; other site 931281001451 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 931281001452 putative active site [active] 931281001453 heme pocket [chemical binding]; other site 931281001454 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281001455 metal binding site [ion binding]; metal-binding site 931281001456 active site 931281001457 I-site; other site 931281001458 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 931281001459 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 931281001460 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 931281001461 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 931281001462 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 931281001463 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 931281001464 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 931281001465 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 931281001466 DNA binding residues [nucleotide binding] 931281001467 potential frameshift: common BLAST hit: gi|148545674|ref|YP_001265776.1| DNA primase 931281001468 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 931281001469 DNA primase, catalytic core; Region: dnaG; TIGR01391 931281001470 CHC2 zinc finger; Region: zf-CHC2; pfam01807 931281001471 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 931281001472 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 931281001473 active site 931281001474 metal binding site [ion binding]; metal-binding site 931281001475 interdomain interaction site; other site 931281001476 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 931281001477 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 931281001478 UGMP family protein; Validated; Region: PRK09604 931281001479 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 931281001480 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 931281001481 Dihydroneopterin aldolase; Region: FolB; smart00905 931281001482 active site 931281001483 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 931281001484 catalytic center binding site [active] 931281001485 ATP binding site [chemical binding]; other site 931281001486 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 931281001487 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 931281001488 active site 931281001489 NTP binding site [chemical binding]; other site 931281001490 metal binding triad [ion binding]; metal-binding site 931281001491 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 931281001492 SpoVR family protein; Provisional; Region: PRK11767 931281001493 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 931281001494 hypothetical protein; Provisional; Region: PRK05325 931281001495 PrkA family serine protein kinase; Provisional; Region: PRK15455 931281001496 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 931281001497 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 931281001498 active site residue [active] 931281001499 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 931281001500 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 931281001501 active site 931281001502 metal binding site [ion binding]; metal-binding site 931281001503 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 931281001504 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 931281001505 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 931281001506 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 931281001507 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 931281001508 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 931281001509 SurA N-terminal domain; Region: SurA_N; pfam09312 931281001510 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 931281001511 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 931281001512 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 931281001513 OstA-like protein; Region: OstA; cl00844 931281001514 Organic solvent tolerance protein; Region: OstA_C; pfam04453 931281001515 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 931281001516 Phosphotransferase enzyme family; Region: APH; pfam01636 931281001517 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 931281001518 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 931281001519 Substrate binding site; other site 931281001520 metal-binding site 931281001521 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 931281001522 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 931281001523 putative metal binding site [ion binding]; other site 931281001524 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 931281001525 HSP70 interaction site [polypeptide binding]; other site 931281001526 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 931281001527 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 931281001528 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281001529 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 931281001530 substrate binding pocket [chemical binding]; other site 931281001531 membrane-bound complex binding site; other site 931281001532 hinge residues; other site 931281001533 PAS domain; Region: PAS_9; pfam13426 931281001534 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 931281001535 putative active site [active] 931281001536 heme pocket [chemical binding]; other site 931281001537 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 931281001538 PAS fold; Region: PAS_3; pfam08447 931281001539 putative active site [active] 931281001540 heme pocket [chemical binding]; other site 931281001541 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 931281001542 Histidine kinase; Region: HisKA_3; pfam07730 931281001543 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 931281001544 ATP binding site [chemical binding]; other site 931281001545 Mg2+ binding site [ion binding]; other site 931281001546 G-X-G motif; other site 931281001547 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 931281001548 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281001549 active site 931281001550 phosphorylation site [posttranslational modification] 931281001551 intermolecular recognition site; other site 931281001552 dimerization interface [polypeptide binding]; other site 931281001553 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 931281001554 DNA binding residues [nucleotide binding] 931281001555 dimerization interface [polypeptide binding]; other site 931281001556 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 931281001557 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 931281001558 Walker A/P-loop; other site 931281001559 ATP binding site [chemical binding]; other site 931281001560 Q-loop/lid; other site 931281001561 ABC transporter signature motif; other site 931281001562 Walker B; other site 931281001563 D-loop; other site 931281001564 H-loop/switch region; other site 931281001565 TOBE domain; Region: TOBE_2; pfam08402 931281001566 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 931281001567 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 931281001568 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 931281001569 dimer interface [polypeptide binding]; other site 931281001570 conserved gate region; other site 931281001571 putative PBP binding loops; other site 931281001572 ABC-ATPase subunit interface; other site 931281001573 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 931281001574 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 931281001575 dimer interface [polypeptide binding]; other site 931281001576 conserved gate region; other site 931281001577 putative PBP binding loops; other site 931281001578 ABC-ATPase subunit interface; other site 931281001579 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 931281001580 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 931281001581 substrate binding site [chemical binding]; other site 931281001582 hexamer interface [polypeptide binding]; other site 931281001583 metal binding site [ion binding]; metal-binding site 931281001584 phosphoglycolate phosphatase; Provisional; Region: PRK13223 931281001585 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 931281001586 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 931281001587 motif II; other site 931281001588 anthranilate synthase component I; Provisional; Region: PRK13565 931281001589 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 931281001590 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 931281001591 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 931281001592 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 931281001593 active site 931281001594 catalytic triad [active] 931281001595 oxyanion hole [active] 931281001596 Autotransporter beta-domain; Region: Autotransporter; pfam03797 931281001597 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 931281001598 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 931281001599 glutamine binding [chemical binding]; other site 931281001600 catalytic triad [active] 931281001601 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 931281001602 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 931281001603 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 931281001604 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 931281001605 active site 931281001606 ribulose/triose binding site [chemical binding]; other site 931281001607 phosphate binding site [ion binding]; other site 931281001608 substrate (anthranilate) binding pocket [chemical binding]; other site 931281001609 product (indole) binding pocket [chemical binding]; other site 931281001610 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 931281001611 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 931281001612 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 931281001613 ligand binding site [chemical binding]; other site 931281001614 flexible hinge region; other site 931281001615 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 931281001616 putative switch regulator; other site 931281001617 non-specific DNA interactions [nucleotide binding]; other site 931281001618 DNA binding site [nucleotide binding] 931281001619 sequence specific DNA binding site [nucleotide binding]; other site 931281001620 putative cAMP binding site [chemical binding]; other site 931281001621 OsmC-like protein; Region: OsmC; cl00767 931281001622 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 931281001623 diiron binding motif [ion binding]; other site 931281001624 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 931281001625 nucleotide binding site/active site [active] 931281001626 HIT family signature motif; other site 931281001627 catalytic residue [active] 931281001628 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 931281001629 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 931281001630 NAD(P) binding site [chemical binding]; other site 931281001631 active site 931281001632 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 931281001633 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 931281001634 FMN binding site [chemical binding]; other site 931281001635 substrate binding site [chemical binding]; other site 931281001636 putative catalytic residue [active] 931281001637 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 931281001638 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 931281001639 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 931281001640 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 931281001641 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 931281001642 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 931281001643 Peptidase family M23; Region: Peptidase_M23; pfam01551 931281001644 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 931281001645 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 931281001646 active site 931281001647 HIGH motif; other site 931281001648 dimer interface [polypeptide binding]; other site 931281001649 KMSKS motif; other site 931281001650 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 931281001651 Biotin operon repressor [Transcription]; Region: BirA; COG1654 931281001652 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 931281001653 pantothenate kinase; Reviewed; Region: PRK13322 931281001654 elongation factor Tu; Reviewed; Region: PRK00049 931281001655 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 931281001656 G1 box; other site 931281001657 GEF interaction site [polypeptide binding]; other site 931281001658 GTP/Mg2+ binding site [chemical binding]; other site 931281001659 Switch I region; other site 931281001660 G2 box; other site 931281001661 G3 box; other site 931281001662 Switch II region; other site 931281001663 G4 box; other site 931281001664 G5 box; other site 931281001665 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 931281001666 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 931281001667 Antibiotic Binding Site [chemical binding]; other site 931281001668 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 931281001669 transcription termination/antitermination factor NusG; Region: nusG; TIGR00922 931281001670 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 931281001671 putative homodimer interface [polypeptide binding]; other site 931281001672 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 931281001673 heterodimer interface [polypeptide binding]; other site 931281001674 homodimer interface [polypeptide binding]; other site 931281001675 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 931281001676 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 931281001677 L7/L12 interface [polypeptide binding]; other site 931281001678 23S rRNA interface [nucleotide binding]; other site 931281001679 L25 interface [polypeptide binding]; other site 931281001680 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 931281001681 mRNA/rRNA interface [nucleotide binding]; other site 931281001682 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 931281001683 23S rRNA interface [nucleotide binding]; other site 931281001684 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 931281001685 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 931281001686 core dimer interface [polypeptide binding]; other site 931281001687 peripheral dimer interface [polypeptide binding]; other site 931281001688 L10 interface [polypeptide binding]; other site 931281001689 L11 interface [polypeptide binding]; other site 931281001690 putative EF-Tu interaction site [polypeptide binding]; other site 931281001691 putative EF-G interaction site [polypeptide binding]; other site 931281001692 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 931281001693 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 931281001694 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 931281001695 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 931281001696 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 931281001697 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 931281001698 RPB3 interaction site [polypeptide binding]; other site 931281001699 RPB1 interaction site [polypeptide binding]; other site 931281001700 RPB11 interaction site [polypeptide binding]; other site 931281001701 RPB10 interaction site [polypeptide binding]; other site 931281001702 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 931281001703 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 931281001704 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 931281001705 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 931281001706 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 931281001707 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 931281001708 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 931281001709 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 931281001710 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 931281001711 DNA binding site [nucleotide binding] 931281001712 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 931281001713 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 931281001714 S17 interaction site [polypeptide binding]; other site 931281001715 S8 interaction site; other site 931281001716 16S rRNA interaction site [nucleotide binding]; other site 931281001717 streptomycin interaction site [chemical binding]; other site 931281001718 23S rRNA interaction site [nucleotide binding]; other site 931281001719 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 931281001720 30S ribosomal protein S7; Validated; Region: PRK05302 931281001721 elongation factor G; Reviewed; Region: PRK00007 931281001722 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 931281001723 G1 box; other site 931281001724 putative GEF interaction site [polypeptide binding]; other site 931281001725 GTP/Mg2+ binding site [chemical binding]; other site 931281001726 Switch I region; other site 931281001727 G2 box; other site 931281001728 G3 box; other site 931281001729 Switch II region; other site 931281001730 G4 box; other site 931281001731 G5 box; other site 931281001732 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 931281001733 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 931281001734 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 931281001735 elongation factor Tu; Reviewed; Region: PRK00049 931281001736 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 931281001737 G1 box; other site 931281001738 GEF interaction site [polypeptide binding]; other site 931281001739 GTP/Mg2+ binding site [chemical binding]; other site 931281001740 Switch I region; other site 931281001741 G2 box; other site 931281001742 G3 box; other site 931281001743 Switch II region; other site 931281001744 G4 box; other site 931281001745 G5 box; other site 931281001746 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 931281001747 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 931281001748 Antibiotic Binding Site [chemical binding]; other site 931281001749 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 931281001750 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 931281001751 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 931281001752 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 931281001753 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 931281001754 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 931281001755 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 931281001756 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 931281001757 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 931281001758 putative translocon binding site; other site 931281001759 protein-rRNA interface [nucleotide binding]; other site 931281001760 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 931281001761 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 931281001762 G-X-X-G motif; other site 931281001763 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 931281001764 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 931281001765 23S rRNA interface [nucleotide binding]; other site 931281001766 5S rRNA interface [nucleotide binding]; other site 931281001767 putative antibiotic binding site [chemical binding]; other site 931281001768 L25 interface [polypeptide binding]; other site 931281001769 L27 interface [polypeptide binding]; other site 931281001770 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 931281001771 23S rRNA interface [nucleotide binding]; other site 931281001772 putative translocon interaction site; other site 931281001773 signal recognition particle (SRP54) interaction site; other site 931281001774 L23 interface [polypeptide binding]; other site 931281001775 trigger factor interaction site; other site 931281001776 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 931281001777 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 931281001778 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 931281001779 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 931281001780 RNA binding site [nucleotide binding]; other site 931281001781 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 931281001782 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 931281001783 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 931281001784 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 931281001785 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 931281001786 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 931281001787 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 931281001788 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 931281001789 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 931281001790 5S rRNA interface [nucleotide binding]; other site 931281001791 23S rRNA interface [nucleotide binding]; other site 931281001792 L5 interface [polypeptide binding]; other site 931281001793 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 931281001794 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 931281001795 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 931281001796 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 931281001797 23S rRNA binding site [nucleotide binding]; other site 931281001798 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 931281001799 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 931281001800 SecY translocase; Region: SecY; pfam00344 931281001801 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 931281001802 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 931281001803 30S ribosomal protein S13; Region: bact_S13; TIGR03631 931281001804 30S ribosomal protein S11; Validated; Region: PRK05309 931281001805 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 931281001806 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 931281001807 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 931281001808 RNA binding surface [nucleotide binding]; other site 931281001809 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 931281001810 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 931281001811 alphaNTD homodimer interface [polypeptide binding]; other site 931281001812 alphaNTD - beta interaction site [polypeptide binding]; other site 931281001813 alphaNTD - beta' interaction site [polypeptide binding]; other site 931281001814 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 931281001815 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 931281001816 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 931281001817 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 931281001818 tetramer interface [polypeptide binding]; other site 931281001819 heme binding pocket [chemical binding]; other site 931281001820 NADPH binding site [chemical binding]; other site 931281001821 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 931281001822 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 931281001823 heme binding site [chemical binding]; other site 931281001824 ferroxidase pore; other site 931281001825 ferroxidase diiron center [ion binding]; other site 931281001826 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 931281001827 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 931281001828 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 931281001829 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 931281001830 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 931281001831 Major Facilitator Superfamily; Region: MFS_1; pfam07690 931281001832 putative substrate translocation pore; other site 931281001833 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 931281001834 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 931281001835 dimer interface [polypeptide binding]; other site 931281001836 ssDNA binding site [nucleotide binding]; other site 931281001837 tetramer (dimer of dimers) interface [polypeptide binding]; other site 931281001838 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 931281001839 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281001840 DNA-binding site [nucleotide binding]; DNA binding site 931281001841 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 931281001842 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281001843 homodimer interface [polypeptide binding]; other site 931281001844 catalytic residue [active] 931281001845 hypothetical protein; Provisional; Region: PRK10621 931281001846 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 931281001847 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 931281001848 malonic semialdehyde reductase; Provisional; Region: PRK10538 931281001849 NAD(P) binding site [chemical binding]; other site 931281001850 active site 931281001851 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 931281001852 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 931281001853 molybdopterin cofactor binding site; other site 931281001854 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 931281001855 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 931281001856 molybdopterin cofactor binding site; other site 931281001857 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 931281001858 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 931281001859 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 931281001860 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 931281001861 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 931281001862 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 931281001863 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 931281001864 selenocysteine synthase; Provisional; Region: PRK04311 931281001865 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 931281001866 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 931281001867 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 931281001868 catalytic residue [active] 931281001869 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 931281001870 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 931281001871 G1 box; other site 931281001872 putative GEF interaction site [polypeptide binding]; other site 931281001873 GTP/Mg2+ binding site [chemical binding]; other site 931281001874 Switch I region; other site 931281001875 G2 box; other site 931281001876 G3 box; other site 931281001877 Switch II region; other site 931281001878 G4 box; other site 931281001879 G5 box; other site 931281001880 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 931281001881 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 931281001882 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 931281001883 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 931281001884 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 931281001885 active site 931281001886 homodimer interface [polypeptide binding]; other site 931281001887 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 931281001888 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 931281001889 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 931281001890 sequence-specific DNA binding site [nucleotide binding]; other site 931281001891 salt bridge; other site 931281001892 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 931281001893 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 931281001894 hypothetical protein; Provisional; Region: PRK10621 931281001895 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 931281001896 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 931281001897 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 931281001898 NAD(P) binding site [chemical binding]; other site 931281001899 active site 931281001900 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 931281001901 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 931281001902 NAD(P) binding site [chemical binding]; other site 931281001903 active site 931281001904 Predicted transcriptional regulators [Transcription]; Region: COG1733 931281001905 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 931281001906 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 931281001907 OmpW family; Region: OmpW; cl17427 931281001908 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 931281001909 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 931281001910 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 931281001911 FtsX-like permease family; Region: FtsX; pfam02687 931281001912 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 931281001913 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 931281001914 Walker A/P-loop; other site 931281001915 ATP binding site [chemical binding]; other site 931281001916 Q-loop/lid; other site 931281001917 ABC transporter signature motif; other site 931281001918 Walker B; other site 931281001919 D-loop; other site 931281001920 H-loop/switch region; other site 931281001921 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 931281001922 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 931281001923 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 931281001924 Predicted methyltransferase [General function prediction only]; Region: COG3897 931281001925 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 931281001926 S-adenosylmethionine binding site [chemical binding]; other site 931281001927 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 931281001928 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 931281001929 ATP cone domain; Region: ATP-cone; pfam03477 931281001930 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 931281001931 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 931281001932 catalytic motif [active] 931281001933 Zn binding site [ion binding]; other site 931281001934 RibD C-terminal domain; Region: RibD_C; cl17279 931281001935 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 931281001936 Lumazine binding domain; Region: Lum_binding; pfam00677 931281001937 Lumazine binding domain; Region: Lum_binding; pfam00677 931281001938 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 931281001939 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 931281001940 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 931281001941 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 931281001942 homopentamer interface [polypeptide binding]; other site 931281001943 active site 931281001944 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 931281001945 putative RNA binding site [nucleotide binding]; other site 931281001946 thiamine monophosphate kinase; Provisional; Region: PRK05731 931281001947 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 931281001948 ATP binding site [chemical binding]; other site 931281001949 dimerization interface [polypeptide binding]; other site 931281001950 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 931281001951 tetramer interfaces [polypeptide binding]; other site 931281001952 binuclear metal-binding site [ion binding]; other site 931281001953 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 931281001954 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 931281001955 membrane-bound complex binding site; other site 931281001956 hinge residues; other site 931281001957 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 931281001958 dimerization interface [polypeptide binding]; other site 931281001959 active site 931281001960 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 931281001961 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 931281001962 cobalamin binding residues [chemical binding]; other site 931281001963 putative BtuC binding residues; other site 931281001964 dimer interface [polypeptide binding]; other site 931281001965 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 931281001966 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 931281001967 N-terminal plug; other site 931281001968 ligand-binding site [chemical binding]; other site 931281001969 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 931281001970 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 931281001971 TPP-binding site; other site 931281001972 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 931281001973 PYR/PP interface [polypeptide binding]; other site 931281001974 dimer interface [polypeptide binding]; other site 931281001975 TPP binding site [chemical binding]; other site 931281001976 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 931281001977 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 931281001978 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 931281001979 substrate binding pocket [chemical binding]; other site 931281001980 chain length determination region; other site 931281001981 substrate-Mg2+ binding site; other site 931281001982 catalytic residues [active] 931281001983 aspartate-rich region 1; other site 931281001984 active site lid residues [active] 931281001985 aspartate-rich region 2; other site 931281001986 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 931281001987 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 931281001988 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 931281001989 Zeta toxin; Region: Zeta_toxin; pfam06414 931281001990 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 931281001991 Putative esterase; Region: Esterase; pfam00756 931281001992 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 931281001993 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 931281001994 phosphorylation site [posttranslational modification] 931281001995 dimer interface [polypeptide binding]; other site 931281001996 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 931281001997 ATP binding site [chemical binding]; other site 931281001998 Mg2+ binding site [ion binding]; other site 931281001999 G-X-G motif; other site 931281002000 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 931281002001 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281002002 active site 931281002003 phosphorylation site [posttranslational modification] 931281002004 intermolecular recognition site; other site 931281002005 dimerization interface [polypeptide binding]; other site 931281002006 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 931281002007 DNA binding site [nucleotide binding] 931281002008 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 931281002009 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 931281002010 N-terminal plug; other site 931281002011 ligand-binding site [chemical binding]; other site 931281002012 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 931281002013 Fe binding site [ion binding]; other site 931281002014 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 931281002015 active site 931281002016 Int/Topo IB signature motif; other site 931281002017 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 931281002018 Homeodomain-like domain; Region: HTH_23; pfam13384 931281002019 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 931281002020 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 931281002021 non-specific DNA binding site [nucleotide binding]; other site 931281002022 salt bridge; other site 931281002023 sequence-specific DNA binding site [nucleotide binding]; other site 931281002024 Predicted transcriptional regulator [Transcription]; Region: COG2932 931281002025 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 931281002026 dimer interface [polypeptide binding]; other site 931281002027 substrate binding site [chemical binding]; other site 931281002028 metal binding sites [ion binding]; metal-binding site 931281002029 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 931281002030 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 931281002031 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 931281002032 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 931281002033 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 931281002034 Coenzyme A binding pocket [chemical binding]; other site 931281002035 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 931281002036 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 931281002037 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 931281002038 ethanolamine permease; Region: 2A0305; TIGR00908 931281002039 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 931281002040 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 931281002041 NAD(P) binding site [chemical binding]; other site 931281002042 catalytic residues [active] 931281002043 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 931281002044 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 931281002045 Walker A motif; other site 931281002046 ATP binding site [chemical binding]; other site 931281002047 Walker B motif; other site 931281002048 arginine finger; other site 931281002049 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 931281002050 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 931281002051 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 931281002052 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 931281002053 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 931281002054 aromatic acid decarboxylase; Validated; Region: PRK05920 931281002055 Flavoprotein; Region: Flavoprotein; pfam02441 931281002056 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 931281002057 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 931281002058 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 931281002059 NAD binding site [chemical binding]; other site 931281002060 active site 931281002061 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 931281002062 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 931281002063 Peptidase C13 family; Region: Peptidase_C13; pfam01650 931281002064 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 931281002065 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 931281002066 putative NAD(P) binding site [chemical binding]; other site 931281002067 catalytic Zn binding site [ion binding]; other site 931281002068 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 931281002069 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 931281002070 E3 interaction surface; other site 931281002071 lipoyl attachment site [posttranslational modification]; other site 931281002072 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 931281002073 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 931281002074 alpha subunit interface [polypeptide binding]; other site 931281002075 TPP binding site [chemical binding]; other site 931281002076 heterodimer interface [polypeptide binding]; other site 931281002077 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 931281002078 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 931281002079 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 931281002080 tetramer interface [polypeptide binding]; other site 931281002081 TPP-binding site [chemical binding]; other site 931281002082 heterodimer interface [polypeptide binding]; other site 931281002083 phosphorylation loop region [posttranslational modification] 931281002084 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 931281002085 ATP-NAD kinase; Region: NAD_kinase; pfam01513 931281002086 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 931281002087 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 931281002088 Walker A motif; other site 931281002089 ATP binding site [chemical binding]; other site 931281002090 Walker B motif; other site 931281002091 arginine finger; other site 931281002092 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 931281002093 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 931281002094 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 931281002095 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 931281002096 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 931281002097 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 931281002098 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 931281002099 carboxyltransferase (CT) interaction site; other site 931281002100 biotinylation site [posttranslational modification]; other site 931281002101 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 931281002102 Dehydroquinase class II; Region: DHquinase_II; pfam01220 931281002103 active site 931281002104 trimer interface [polypeptide binding]; other site 931281002105 dimer interface [polypeptide binding]; other site 931281002106 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 931281002107 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 931281002108 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 931281002109 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 931281002110 DsbD alpha interface [polypeptide binding]; other site 931281002111 catalytic residues [active] 931281002112 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 931281002113 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 931281002114 dimer interface [polypeptide binding]; other site 931281002115 putative CheW interface [polypeptide binding]; other site 931281002116 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 931281002117 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 931281002118 active site 931281002119 phosphorylation site [posttranslational modification] 931281002120 intermolecular recognition site; other site 931281002121 dimerization interface [polypeptide binding]; other site 931281002122 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281002123 active site 931281002124 phosphorylation site [posttranslational modification] 931281002125 intermolecular recognition site; other site 931281002126 dimerization interface [polypeptide binding]; other site 931281002127 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281002128 metal binding site [ion binding]; metal-binding site 931281002129 active site 931281002130 I-site; other site 931281002131 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 931281002132 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 931281002133 nudix motif; other site 931281002134 translation initiation factor Sui1; Validated; Region: PRK06824 931281002135 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 931281002136 putative rRNA binding site [nucleotide binding]; other site 931281002137 arginine decarboxylase; Provisional; Region: PRK05354 931281002138 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 931281002139 dimer interface [polypeptide binding]; other site 931281002140 active site 931281002141 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 931281002142 catalytic residues [active] 931281002143 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 931281002144 Transposase IS200 like; Region: Y1_Tnp; pfam01797 931281002145 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 931281002146 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 931281002147 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 931281002148 MG2 domain; Region: A2M_N; pfam01835 931281002149 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 931281002150 Alpha-2-macroglobulin family; Region: A2M; pfam00207 931281002151 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 931281002152 surface patch; other site 931281002153 thioester region; other site 931281002154 specificity defining residues; other site 931281002155 penicillin-binding protein 1C; Provisional; Region: PRK11240 931281002156 Transglycosylase; Region: Transgly; pfam00912 931281002157 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 931281002158 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 931281002159 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 931281002160 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 931281002161 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 931281002162 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281002163 active site 931281002164 phosphorylation site [posttranslational modification] 931281002165 intermolecular recognition site; other site 931281002166 dimerization interface [polypeptide binding]; other site 931281002167 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 931281002168 DNA binding residues [nucleotide binding] 931281002169 dimerization interface [polypeptide binding]; other site 931281002170 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 931281002171 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 931281002172 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 931281002173 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 931281002174 S-adenosylmethionine binding site [chemical binding]; other site 931281002175 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 931281002176 homodimer interface [polypeptide binding]; other site 931281002177 chemical substrate binding site [chemical binding]; other site 931281002178 oligomer interface [polypeptide binding]; other site 931281002179 metal binding site [ion binding]; metal-binding site 931281002180 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 931281002181 active site 2 [active] 931281002182 active site 1 [active] 931281002183 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 931281002184 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 931281002185 NAD(P) binding site [chemical binding]; other site 931281002186 active site 931281002187 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 931281002188 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 931281002189 dimer interface [polypeptide binding]; other site 931281002190 active site 931281002191 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 931281002192 Cache domain; Region: Cache_1; pfam02743 931281002193 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 931281002194 dimerization interface [polypeptide binding]; other site 931281002195 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 931281002196 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 931281002197 dimer interface [polypeptide binding]; other site 931281002198 putative CheW interface [polypeptide binding]; other site 931281002199 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 931281002200 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 931281002201 DNA binding residues [nucleotide binding] 931281002202 dimer interface [polypeptide binding]; other site 931281002203 copper binding site [ion binding]; other site 931281002204 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 931281002205 metal-binding site [ion binding] 931281002206 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 931281002207 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 931281002208 metal-binding site [ion binding] 931281002209 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 931281002210 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 931281002211 metal-binding site [ion binding] 931281002212 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 931281002213 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 931281002214 putative substrate translocation pore; other site 931281002215 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 931281002216 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 931281002217 active site 931281002218 purine riboside binding site [chemical binding]; other site 931281002219 short chain dehydrogenase; Provisional; Region: PRK08177 931281002220 C factor cell-cell signaling protein; Provisional; Region: PRK09009 931281002221 NAD(P) binding site [chemical binding]; other site 931281002222 active site 931281002223 Uncharacterized conserved protein [Function unknown]; Region: COG1739 931281002224 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 931281002225 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 931281002226 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 931281002227 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 931281002228 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 931281002229 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281002230 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281002231 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 931281002232 dimerization interface [polypeptide binding]; other site 931281002233 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 931281002234 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 931281002235 inhibitor-cofactor binding pocket; inhibition site 931281002236 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281002237 catalytic residue [active] 931281002238 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 931281002239 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 931281002240 tetrameric interface [polypeptide binding]; other site 931281002241 NAD binding site [chemical binding]; other site 931281002242 catalytic residues [active] 931281002243 Paraquat-inducible protein A; Region: PqiA; pfam04403 931281002244 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 931281002245 Paraquat-inducible protein A; Region: PqiA; pfam04403 931281002246 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 931281002247 mce related protein; Region: MCE; pfam02470 931281002248 mce related protein; Region: MCE; pfam02470 931281002249 mce related protein; Region: MCE; pfam02470 931281002250 mce related protein; Region: MCE; pfam02470 931281002251 mce related protein; Region: MCE; pfam02470 931281002252 mce related protein; Region: MCE; pfam02470 931281002253 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 931281002254 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 931281002255 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 931281002256 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 931281002257 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 931281002258 active site 931281002259 Riboflavin kinase; Region: Flavokinase; pfam01687 931281002260 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 931281002261 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 931281002262 active site 931281002263 HIGH motif; other site 931281002264 nucleotide binding site [chemical binding]; other site 931281002265 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 931281002266 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 931281002267 active site 931281002268 KMSKS motif; other site 931281002269 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 931281002270 tRNA binding surface [nucleotide binding]; other site 931281002271 anticodon binding site; other site 931281002272 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 931281002273 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 931281002274 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 931281002275 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 931281002276 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 931281002277 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 931281002278 Type II transport protein GspH; Region: GspH; pfam12019 931281002279 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 931281002280 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 931281002281 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 931281002282 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 931281002283 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 931281002284 putative amidase; Provisional; Region: PRK06169 931281002285 Amidase; Region: Amidase; pfam01425 931281002286 allantoate amidohydrolase; Reviewed; Region: PRK12893 931281002287 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 931281002288 active site 931281002289 metal binding site [ion binding]; metal-binding site 931281002290 dimer interface [polypeptide binding]; other site 931281002291 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 931281002292 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 931281002293 Walker A/P-loop; other site 931281002294 ATP binding site [chemical binding]; other site 931281002295 Q-loop/lid; other site 931281002296 ABC transporter signature motif; other site 931281002297 Walker B; other site 931281002298 D-loop; other site 931281002299 H-loop/switch region; other site 931281002300 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 931281002301 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 931281002302 Walker A/P-loop; other site 931281002303 ATP binding site [chemical binding]; other site 931281002304 Q-loop/lid; other site 931281002305 ABC transporter signature motif; other site 931281002306 Walker B; other site 931281002307 D-loop; other site 931281002308 H-loop/switch region; other site 931281002309 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 931281002310 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 931281002311 TM-ABC transporter signature motif; other site 931281002312 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 931281002313 TM-ABC transporter signature motif; other site 931281002314 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 931281002315 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 931281002316 putative ligand binding site [chemical binding]; other site 931281002317 Transcriptional regulators [Transcription]; Region: FadR; COG2186 931281002318 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281002319 DNA-binding site [nucleotide binding]; DNA binding site 931281002320 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 931281002321 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 931281002322 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 931281002323 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 931281002324 RNA binding surface [nucleotide binding]; other site 931281002325 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 931281002326 active site 931281002327 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 931281002328 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 931281002329 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 931281002330 Clp amino terminal domain; Region: Clp_N; pfam02861 931281002331 Clp amino terminal domain; Region: Clp_N; pfam02861 931281002332 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 931281002333 Walker A motif; other site 931281002334 ATP binding site [chemical binding]; other site 931281002335 Walker B motif; other site 931281002336 arginine finger; other site 931281002337 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 931281002338 Walker A motif; other site 931281002339 ATP binding site [chemical binding]; other site 931281002340 Walker B motif; other site 931281002341 arginine finger; other site 931281002342 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 931281002343 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 931281002344 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 931281002345 Protein of unknown function (DUF3094); Region: DUF3094; pfam11293 931281002346 Protein of unknown function (DUF1780); Region: DUF1780; pfam08682 931281002347 Predicted membrane protein [Function unknown]; Region: COG3235 931281002348 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 931281002349 DNA gyrase inhibitor; Reviewed; Region: PRK00418 931281002350 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 931281002351 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 931281002352 CoA-binding site [chemical binding]; other site 931281002353 ATP-binding [chemical binding]; other site 931281002354 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 931281002355 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 931281002356 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 931281002357 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 931281002358 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 931281002359 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 931281002360 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 931281002361 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 931281002362 Pilin (bacterial filament); Region: Pilin; pfam00114 931281002363 Fic family protein [Function unknown]; Region: COG3177 931281002364 Fic/DOC family; Region: Fic; pfam02661 931281002365 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 931281002366 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 931281002367 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 931281002368 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 931281002369 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 931281002370 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 931281002371 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3972 931281002372 Family description; Region: UvrD_C_2; pfam13538 931281002373 GntP family permease; Region: GntP_permease; pfam02447 931281002374 fructuronate transporter; Provisional; Region: PRK10034; cl15264 931281002375 malate dehydrogenase; Reviewed; Region: PRK06223 931281002376 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 931281002377 NAD(P) binding site [chemical binding]; other site 931281002378 dimer interface [polypeptide binding]; other site 931281002379 tetramer (dimer of dimers) interface [polypeptide binding]; other site 931281002380 substrate binding site [chemical binding]; other site 931281002381 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 931281002382 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 931281002383 dimer interface [polypeptide binding]; other site 931281002384 conserved gate region; other site 931281002385 putative PBP binding loops; other site 931281002386 ABC-ATPase subunit interface; other site 931281002387 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 931281002388 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281002389 substrate binding pocket [chemical binding]; other site 931281002390 membrane-bound complex binding site; other site 931281002391 hinge residues; other site 931281002392 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 931281002393 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 931281002394 cystathionine gamma-synthase; Provisional; Region: PRK08249 931281002395 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 931281002396 homodimer interface [polypeptide binding]; other site 931281002397 substrate-cofactor binding pocket; other site 931281002398 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281002399 catalytic residue [active] 931281002400 S-methylmethionine transporter; Provisional; Region: PRK11387 931281002401 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 931281002402 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 931281002403 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281002404 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 931281002405 dimerization interface [polypeptide binding]; other site 931281002406 substrate binding pocket [chemical binding]; other site 931281002407 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 931281002408 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 931281002409 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281002410 catalytic residue [active] 931281002411 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 931281002412 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 931281002413 AsnC family; Region: AsnC_trans_reg; pfam01037 931281002414 homoserine dehydrogenase; Provisional; Region: PRK06270 931281002415 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 931281002416 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 931281002417 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 931281002418 NAD(P) binding site [chemical binding]; other site 931281002419 catalytic residues [active] 931281002420 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 931281002421 homotrimer interaction site [polypeptide binding]; other site 931281002422 putative active site [active] 931281002423 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 931281002424 Sodium Bile acid symporter family; Region: SBF; cl17470 931281002425 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 931281002426 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 931281002427 dimer interface [polypeptide binding]; other site 931281002428 active site 931281002429 glycine-pyridoxal phosphate binding site [chemical binding]; other site 931281002430 folate binding site [chemical binding]; other site 931281002431 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 931281002432 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 931281002433 putative active site [active] 931281002434 heme pocket [chemical binding]; other site 931281002435 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 931281002436 putative active site [active] 931281002437 heme pocket [chemical binding]; other site 931281002438 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 931281002439 putative active site [active] 931281002440 heme pocket [chemical binding]; other site 931281002441 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281002442 metal binding site [ion binding]; metal-binding site 931281002443 active site 931281002444 I-site; other site 931281002445 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 931281002446 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 931281002447 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281002448 Walker A/P-loop; other site 931281002449 ATP binding site [chemical binding]; other site 931281002450 Q-loop/lid; other site 931281002451 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 931281002452 ABC transporter signature motif; other site 931281002453 Walker B; other site 931281002454 D-loop; other site 931281002455 ABC transporter; Region: ABC_tran_2; pfam12848 931281002456 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 931281002457 glutamate dehydrogenase; Provisional; Region: PRK09414 931281002458 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 931281002459 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 931281002460 NAD(P) binding site [chemical binding]; other site 931281002461 transcription elongation factor regulatory protein; Validated; Region: PRK06342 931281002462 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 931281002463 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 931281002464 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 931281002465 AAA domain; Region: AAA_32; pfam13654 931281002466 lon-related putative ATP-dependent protease; Region: lon_rel; TIGR00764 931281002467 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 931281002468 hypothetical protein; Provisional; Region: PRK05208 931281002469 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 931281002470 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 931281002471 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 931281002472 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 931281002473 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 931281002474 PhnA protein; Region: PhnA; pfam03831 931281002475 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 931281002476 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 931281002477 substrate binding pocket [chemical binding]; other site 931281002478 chain length determination region; other site 931281002479 substrate-Mg2+ binding site; other site 931281002480 catalytic residues [active] 931281002481 aspartate-rich region 1; other site 931281002482 active site lid residues [active] 931281002483 aspartate-rich region 2; other site 931281002484 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 931281002485 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 931281002486 GTPase CgtA; Reviewed; Region: obgE; PRK12298 931281002487 GTP1/OBG; Region: GTP1_OBG; pfam01018 931281002488 Obg GTPase; Region: Obg; cd01898 931281002489 G1 box; other site 931281002490 GTP/Mg2+ binding site [chemical binding]; other site 931281002491 Switch I region; other site 931281002492 G2 box; other site 931281002493 G3 box; other site 931281002494 Switch II region; other site 931281002495 G4 box; other site 931281002496 G5 box; other site 931281002497 gamma-glutamyl kinase; Provisional; Region: PRK05429 931281002498 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 931281002499 nucleotide binding site [chemical binding]; other site 931281002500 homotetrameric interface [polypeptide binding]; other site 931281002501 putative phosphate binding site [ion binding]; other site 931281002502 putative allosteric binding site; other site 931281002503 PUA domain; Region: PUA; pfam01472 931281002504 hypothetical protein; Provisional; Region: PRK10756 931281002505 CreA protein; Region: CreA; pfam05981 931281002506 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 931281002507 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 931281002508 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 931281002509 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 931281002510 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 931281002511 Coenzyme A binding pocket [chemical binding]; other site 931281002512 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 931281002513 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281002514 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 931281002515 dimerization interface [polypeptide binding]; other site 931281002516 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 931281002517 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 931281002518 FecR protein; Region: FecR; pfam04773 931281002519 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 931281002520 putative substrate translocation pore; other site 931281002521 Major Facilitator Superfamily; Region: MFS_1; pfam07690 931281002522 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 931281002523 Major Facilitator Superfamily; Region: MFS_1; pfam07690 931281002524 putative substrate translocation pore; other site 931281002525 fec operon regulator FecR; Reviewed; Region: PRK09774 931281002526 FecR protein; Region: FecR; pfam04773 931281002527 RNA polymerase sigma factor; Provisional; Region: PRK12528 931281002528 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 931281002529 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 931281002530 DNA binding residues [nucleotide binding] 931281002531 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 931281002532 endonuclease III; Region: ENDO3c; smart00478 931281002533 minor groove reading motif; other site 931281002534 helix-hairpin-helix signature motif; other site 931281002535 substrate binding pocket [chemical binding]; other site 931281002536 active site 931281002537 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 931281002538 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 931281002539 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281002540 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 931281002541 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 931281002542 DNA binding site [nucleotide binding] 931281002543 active site 931281002544 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 931281002545 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 931281002546 Mechanosensitive ion channel; Region: MS_channel; pfam00924 931281002547 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 931281002548 Arabidopsis betaine aldehyde dehydrogenase 1 and 2, ALDH family 10A8 and 10A9-like; Region: ALDH_F10_BADH; cd07110 931281002549 NAD(P) binding site [chemical binding]; other site 931281002550 catalytic residues [active] 931281002551 catalytic residues [active] 931281002552 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 931281002553 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 931281002554 Na binding site [ion binding]; other site 931281002555 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 931281002556 SnoaL-like domain; Region: SnoaL_3; pfam13474 931281002557 Isochorismatase family; Region: Isochorismatase; pfam00857 931281002558 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 931281002559 catalytic triad [active] 931281002560 dimer interface [polypeptide binding]; other site 931281002561 conserved cis-peptide bond; other site 931281002562 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 931281002563 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 931281002564 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 931281002565 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 931281002566 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 931281002567 multidrug resistance protein MdtN; Provisional; Region: PRK10476 931281002568 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 931281002569 HlyD family secretion protein; Region: HlyD_3; pfam13437 931281002570 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 931281002571 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 931281002572 Sulfate transporter family; Region: Sulfate_transp; pfam00916 931281002573 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 931281002574 LysR family transcriptional regulator; Provisional; Region: PRK14997 931281002575 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 931281002576 putative effector binding pocket; other site 931281002577 dimerization interface [polypeptide binding]; other site 931281002578 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 931281002579 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 931281002580 potential catalytic triad [active] 931281002581 conserved cys residue [active] 931281002582 short chain dehydrogenase; Provisional; Region: PRK07577 931281002583 classical (c) SDRs; Region: SDR_c; cd05233 931281002584 NAD(P) binding site [chemical binding]; other site 931281002585 active site 931281002586 GTP-binding protein YchF; Reviewed; Region: PRK09601 931281002587 YchF GTPase; Region: YchF; cd01900 931281002588 G1 box; other site 931281002589 GTP/Mg2+ binding site [chemical binding]; other site 931281002590 Switch I region; other site 931281002591 G2 box; other site 931281002592 Switch II region; other site 931281002593 G3 box; other site 931281002594 G4 box; other site 931281002595 G5 box; other site 931281002596 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 931281002597 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 931281002598 putative active site [active] 931281002599 catalytic residue [active] 931281002600 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 931281002601 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 931281002602 5S rRNA interface [nucleotide binding]; other site 931281002603 CTC domain interface [polypeptide binding]; other site 931281002604 L16 interface [polypeptide binding]; other site 931281002605 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 931281002606 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 931281002607 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 931281002608 active site 931281002609 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 931281002610 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 931281002611 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 931281002612 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 931281002613 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 931281002614 TPR motif; other site 931281002615 binding surface 931281002616 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 931281002617 binding surface 931281002618 TPR motif; other site 931281002619 TPR repeat; Region: TPR_11; pfam13414 931281002620 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 931281002621 binding surface 931281002622 TPR motif; other site 931281002623 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 931281002624 active site 931281002625 metal-binding site 931281002626 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 931281002627 hypothetical protein; Provisional; Region: PRK05849 931281002628 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 931281002629 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 931281002630 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 931281002631 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 931281002632 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 931281002633 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 931281002634 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 931281002635 tRNA; other site 931281002636 putative tRNA binding site [nucleotide binding]; other site 931281002637 putative NADP binding site [chemical binding]; other site 931281002638 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 931281002639 peptide chain release factor 1; Validated; Region: prfA; PRK00591 931281002640 This domain is found in peptide chain release factors; Region: PCRF; smart00937 931281002641 RF-1 domain; Region: RF-1; pfam00472 931281002642 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 931281002643 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 931281002644 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 931281002645 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 931281002646 ATP binding site [chemical binding]; other site 931281002647 substrate interface [chemical binding]; other site 931281002648 glutamate racemase; Provisional; Region: PRK00865 931281002649 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 931281002650 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 931281002651 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 931281002652 DNA photolyase; Region: DNA_photolyase; pfam00875 931281002653 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 931281002654 DNA binding residues [nucleotide binding] 931281002655 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 931281002656 B12 binding domain; Region: B12-binding_2; cl03653 931281002657 Protein of unknown function (DUF523); Region: DUF523; pfam04463 931281002658 Uncharacterized conserved protein [Function unknown]; Region: COG3272 931281002659 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 931281002660 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 931281002661 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 931281002662 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 931281002663 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 931281002664 NAD(P) binding site [chemical binding]; other site 931281002665 active site 931281002666 ferrochelatase; Reviewed; Region: hemH; PRK00035 931281002667 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 931281002668 C-terminal domain interface [polypeptide binding]; other site 931281002669 active site 931281002670 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 931281002671 active site 931281002672 N-terminal domain interface [polypeptide binding]; other site 931281002673 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 931281002674 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 931281002675 active site 931281002676 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 931281002677 active site 931281002678 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 931281002679 malate:quinone oxidoreductase; Reviewed; Region: PRK13339 931281002680 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 931281002681 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 931281002682 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 931281002683 putative acyl-acceptor binding pocket; other site 931281002684 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 931281002685 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 931281002686 Uncharacterized conserved protein [Function unknown]; Region: COG2135 931281002687 Peptidase family M48; Region: Peptidase_M48; pfam01435 931281002688 Predicted membrane protein [Function unknown]; Region: COG2119 931281002689 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 931281002690 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 931281002691 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 931281002692 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 931281002693 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 931281002694 S-adenosylmethionine binding site [chemical binding]; other site 931281002695 glycerate dehydrogenase; Provisional; Region: PRK06487 931281002696 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 931281002697 putative ligand binding site [chemical binding]; other site 931281002698 putative NAD binding site [chemical binding]; other site 931281002699 catalytic site [active] 931281002700 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 931281002701 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 931281002702 acyl-activating enzyme (AAE) consensus motif; other site 931281002703 AMP binding site [chemical binding]; other site 931281002704 active site 931281002705 CoA binding site [chemical binding]; other site 931281002706 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 931281002707 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 931281002708 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 931281002709 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 931281002710 DNA binding residues [nucleotide binding] 931281002711 dimerization interface [polypeptide binding]; other site 931281002712 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 931281002713 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281002714 active site 931281002715 phosphorylation site [posttranslational modification] 931281002716 intermolecular recognition site; other site 931281002717 dimerization interface [polypeptide binding]; other site 931281002718 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 931281002719 binding surface 931281002720 TPR motif; other site 931281002721 TPR repeat; Region: TPR_11; pfam13414 931281002722 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 931281002723 binding surface 931281002724 TPR motif; other site 931281002725 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 931281002726 binding surface 931281002727 TPR motif; other site 931281002728 TPR repeat; Region: TPR_11; pfam13414 931281002729 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 931281002730 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 931281002731 ATP binding site [chemical binding]; other site 931281002732 Mg2+ binding site [ion binding]; other site 931281002733 G-X-G motif; other site 931281002734 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 931281002735 toxin ChpB; Provisional; Region: PRK09812 931281002736 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 931281002737 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 931281002738 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 931281002739 ligand binding site [chemical binding]; other site 931281002740 phosphate acetyltransferase; Reviewed; Region: PRK05632 931281002741 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 931281002742 DRTGG domain; Region: DRTGG; pfam07085 931281002743 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 931281002744 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 931281002745 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 931281002746 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 931281002747 catalytic residues [active] 931281002748 dimer interface [polypeptide binding]; other site 931281002749 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 931281002750 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 931281002751 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 931281002752 PAS domain; Region: PAS_9; pfam13426 931281002753 putative active site [active] 931281002754 heme pocket [chemical binding]; other site 931281002755 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 931281002756 PAS domain; Region: PAS_9; pfam13426 931281002757 putative active site [active] 931281002758 heme pocket [chemical binding]; other site 931281002759 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 931281002760 dimer interface [polypeptide binding]; other site 931281002761 putative CheW interface [polypeptide binding]; other site 931281002762 Domain of unknown function (DUF1851); Region: DUF1851; pfam08906 931281002763 putative sulfate transport protein CysZ; Validated; Region: PRK04949 931281002764 thioredoxin reductase; Provisional; Region: PRK10262 931281002765 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 931281002766 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 931281002767 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 931281002768 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 931281002769 dimerization interface [polypeptide binding]; other site 931281002770 active site 931281002771 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 931281002772 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 931281002773 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 931281002774 amidase catalytic site [active] 931281002775 Zn binding residues [ion binding]; other site 931281002776 substrate binding site [chemical binding]; other site 931281002777 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 931281002778 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 931281002779 active site 931281002780 potential frameshift: common BLAST hit: gi|26987528|ref|NP_742953.1| DNA-binding transcriptional regulator FruR 931281002781 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 931281002782 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 931281002783 DNA binding site [nucleotide binding] 931281002784 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 931281002785 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 931281002786 active site 931281002787 phosphorylation site [posttranslational modification] 931281002788 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 931281002789 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 931281002790 dimerization domain swap beta strand [polypeptide binding]; other site 931281002791 regulatory protein interface [polypeptide binding]; other site 931281002792 active site 931281002793 regulatory phosphorylation site [posttranslational modification]; other site 931281002794 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 931281002795 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 931281002796 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 931281002797 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 931281002798 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 931281002799 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 931281002800 putative substrate binding site [chemical binding]; other site 931281002801 putative ATP binding site [chemical binding]; other site 931281002802 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 931281002803 active site 931281002804 P-loop; other site 931281002805 phosphorylation site [posttranslational modification] 931281002806 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 931281002807 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 931281002808 active site 931281002809 P-loop; other site 931281002810 phosphorylation site [posttranslational modification] 931281002811 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 931281002812 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 931281002813 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 931281002814 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 931281002815 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281002816 metal binding site [ion binding]; metal-binding site 931281002817 active site 931281002818 I-site; other site 931281002819 outer membrane porin, OprD family; Region: OprD; pfam03573 931281002820 Flagellin N-methylase; Region: FliB; pfam03692 931281002821 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 931281002822 Response regulator receiver domain; Region: Response_reg; pfam00072 931281002823 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281002824 active site 931281002825 phosphorylation site [posttranslational modification] 931281002826 intermolecular recognition site; other site 931281002827 dimerization interface [polypeptide binding]; other site 931281002828 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 931281002829 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 931281002830 HlyD family secretion protein; Region: HlyD_3; pfam13437 931281002831 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 931281002832 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 931281002833 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281002834 Walker A/P-loop; other site 931281002835 ATP binding site [chemical binding]; other site 931281002836 Q-loop/lid; other site 931281002837 ABC transporter signature motif; other site 931281002838 Walker B; other site 931281002839 D-loop; other site 931281002840 H-loop/switch region; other site 931281002841 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 931281002842 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 931281002843 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 931281002844 GAF domain; Region: GAF; pfam01590 931281002845 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 931281002846 Walker A motif; other site 931281002847 ATP binding site [chemical binding]; other site 931281002848 Walker B motif; other site 931281002849 arginine finger; other site 931281002850 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 931281002851 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 931281002852 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 931281002853 heme-binding site [chemical binding]; other site 931281002854 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 931281002855 FAD binding pocket [chemical binding]; other site 931281002856 FAD binding motif [chemical binding]; other site 931281002857 phosphate binding motif [ion binding]; other site 931281002858 beta-alpha-beta structure motif; other site 931281002859 NAD binding pocket [chemical binding]; other site 931281002860 Heme binding pocket [chemical binding]; other site 931281002861 disulfide bond formation protein B; Provisional; Region: PRK02110 931281002862 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 931281002863 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 931281002864 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 931281002865 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 931281002866 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 931281002867 D-pathway; other site 931281002868 Putative ubiquinol binding site [chemical binding]; other site 931281002869 Low-spin heme (heme b) binding site [chemical binding]; other site 931281002870 Putative water exit pathway; other site 931281002871 Binuclear center (heme o3/CuB) [ion binding]; other site 931281002872 K-pathway; other site 931281002873 Putative proton exit pathway; other site 931281002874 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 931281002875 Subunit I/III interface [polypeptide binding]; other site 931281002876 Subunit III/IV interface [polypeptide binding]; other site 931281002877 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 931281002878 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 931281002879 UbiA prenyltransferase family; Region: UbiA; pfam01040 931281002880 aminotransferase; Validated; Region: PRK08175 931281002881 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 931281002882 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281002883 homodimer interface [polypeptide binding]; other site 931281002884 catalytic residue [active] 931281002885 Flagellin N-methylase; Region: FliB; pfam03692 931281002886 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 931281002887 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 931281002888 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 931281002889 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 931281002890 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 931281002891 DNA binding residues [nucleotide binding] 931281002892 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 931281002893 FecR protein; Region: FecR; pfam04773 931281002894 Secretin and TonB N terminus short domain; Region: STN; smart00965 931281002895 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 931281002896 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 931281002897 N-terminal plug; other site 931281002898 ligand-binding site [chemical binding]; other site 931281002899 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 931281002900 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 931281002901 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 931281002902 active site residue [active] 931281002903 selenophosphate synthetase; Provisional; Region: PRK00943 931281002904 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 931281002905 dimerization interface [polypeptide binding]; other site 931281002906 putative ATP binding site [chemical binding]; other site 931281002907 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 931281002908 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281002909 substrate binding pocket [chemical binding]; other site 931281002910 membrane-bound complex binding site; other site 931281002911 hinge residues; other site 931281002912 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 931281002913 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281002914 Walker A/P-loop; other site 931281002915 ATP binding site [chemical binding]; other site 931281002916 Q-loop/lid; other site 931281002917 ABC transporter signature motif; other site 931281002918 Walker B; other site 931281002919 D-loop; other site 931281002920 H-loop/switch region; other site 931281002921 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 931281002922 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 931281002923 dimer interface [polypeptide binding]; other site 931281002924 conserved gate region; other site 931281002925 putative PBP binding loops; other site 931281002926 ABC-ATPase subunit interface; other site 931281002927 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 931281002928 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 931281002929 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 931281002930 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 931281002931 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 931281002932 Coenzyme A binding pocket [chemical binding]; other site 931281002933 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 931281002934 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 931281002935 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 931281002936 dimer interface [polypeptide binding]; other site 931281002937 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 931281002938 ligand binding site [chemical binding]; other site 931281002939 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 931281002940 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 931281002941 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_3; cd06151 931281002942 homotrimer interaction site [polypeptide binding]; other site 931281002943 putative active site [active] 931281002944 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 931281002945 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 931281002946 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 931281002947 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 931281002948 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 931281002949 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 931281002950 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 931281002951 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 931281002952 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 931281002953 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 931281002954 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 931281002955 Protein export membrane protein; Region: SecD_SecF; pfam02355 931281002956 hypothetical protein; Provisional; Region: PRK11280 931281002957 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 931281002958 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 931281002959 active site 931281002960 dimerization interface [polypeptide binding]; other site 931281002961 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 931281002962 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 931281002963 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 931281002964 serine O-acetyltransferase; Region: cysE; TIGR01172 931281002965 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 931281002966 trimer interface [polypeptide binding]; other site 931281002967 active site 931281002968 substrate binding site [chemical binding]; other site 931281002969 CoA binding site [chemical binding]; other site 931281002970 Transcriptional regulator; Region: Rrf2; cl17282 931281002971 Rrf2 family protein; Region: rrf2_super; TIGR00738 931281002972 cysteine desulfurase; Provisional; Region: PRK14012 931281002973 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 931281002974 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 931281002975 catalytic residue [active] 931281002976 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 931281002977 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 931281002978 trimerization site [polypeptide binding]; other site 931281002979 active site 931281002980 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 931281002981 co-chaperone HscB; Provisional; Region: hscB; PRK00294 931281002982 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 931281002983 HSP70 interaction site [polypeptide binding]; other site 931281002984 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 931281002985 chaperone protein HscA; Provisional; Region: hscA; PRK05183 931281002986 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 931281002987 nucleotide binding site [chemical binding]; other site 931281002988 putative NEF/HSP70 interaction site [polypeptide binding]; other site 931281002989 SBD interface [polypeptide binding]; other site 931281002990 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 931281002991 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 931281002992 catalytic loop [active] 931281002993 iron binding site [ion binding]; other site 931281002994 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 931281002995 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 931281002996 active site 931281002997 multimer interface [polypeptide binding]; other site 931281002998 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 931281002999 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 931281003000 FeS/SAM binding site; other site 931281003001 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 931281003002 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 931281003003 TPR motif; other site 931281003004 binding surface 931281003005 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 931281003006 binding surface 931281003007 TPR motif; other site 931281003008 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 931281003009 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 931281003010 non-specific DNA binding site [nucleotide binding]; other site 931281003011 salt bridge; other site 931281003012 sequence-specific DNA binding site [nucleotide binding]; other site 931281003013 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 931281003014 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 931281003015 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 931281003016 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 931281003017 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 931281003018 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 931281003019 dimer interface [polypeptide binding]; other site 931281003020 motif 1; other site 931281003021 active site 931281003022 motif 2; other site 931281003023 motif 3; other site 931281003024 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 931281003025 anticodon binding site; other site 931281003026 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 931281003027 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 931281003028 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 931281003029 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 931281003030 Trp docking motif [polypeptide binding]; other site 931281003031 active site 931281003032 GTP-binding protein Der; Reviewed; Region: PRK00093 931281003033 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 931281003034 G1 box; other site 931281003035 GTP/Mg2+ binding site [chemical binding]; other site 931281003036 Switch I region; other site 931281003037 G2 box; other site 931281003038 Switch II region; other site 931281003039 G3 box; other site 931281003040 G4 box; other site 931281003041 G5 box; other site 931281003042 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 931281003043 G1 box; other site 931281003044 GTP/Mg2+ binding site [chemical binding]; other site 931281003045 Switch I region; other site 931281003046 G2 box; other site 931281003047 G3 box; other site 931281003048 Switch II region; other site 931281003049 G4 box; other site 931281003050 G5 box; other site 931281003051 methionine aminotransferase; Validated; Region: PRK09082 931281003052 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 931281003053 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281003054 homodimer interface [polypeptide binding]; other site 931281003055 catalytic residue [active] 931281003056 C-N hydrolase family amidase; Provisional; Region: PRK10438 931281003057 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 931281003058 putative active site [active] 931281003059 catalytic triad [active] 931281003060 dimer interface [polypeptide binding]; other site 931281003061 multimer interface [polypeptide binding]; other site 931281003062 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 931281003063 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 931281003064 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 931281003065 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 931281003066 Flavodoxin; Region: Flavodoxin_1; pfam00258 931281003067 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 931281003068 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like1; cd06200 931281003069 FAD binding pocket [chemical binding]; other site 931281003070 FAD binding motif [chemical binding]; other site 931281003071 catalytic residues [active] 931281003072 NAD binding pocket [chemical binding]; other site 931281003073 phosphate binding motif [ion binding]; other site 931281003074 beta-alpha-beta structure motif; other site 931281003075 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 931281003076 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 931281003077 N-terminal plug; other site 931281003078 ligand-binding site [chemical binding]; other site 931281003079 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 931281003080 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 931281003081 Sel1 repeat; Region: Sel1; cl02723 931281003082 Sel1 repeat; Region: Sel1; cl02723 931281003083 Sel1-like repeats; Region: SEL1; smart00671 931281003084 Sel1 repeat; Region: Sel1; cl02723 931281003085 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 931281003086 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 931281003087 dimer interface [polypeptide binding]; other site 931281003088 active site 931281003089 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 931281003090 catalytic residues [active] 931281003091 substrate binding site [chemical binding]; other site 931281003092 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 931281003093 RNA polymerase sigma factor; Reviewed; Region: PRK12527 931281003094 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 931281003095 DNA binding residues [nucleotide binding] 931281003096 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 931281003097 FecR protein; Region: FecR; pfam04773 931281003098 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 931281003099 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 931281003100 N-terminal plug; other site 931281003101 ligand-binding site [chemical binding]; other site 931281003102 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 931281003103 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 931281003104 Walker A/P-loop; other site 931281003105 ATP binding site [chemical binding]; other site 931281003106 Q-loop/lid; other site 931281003107 ABC transporter signature motif; other site 931281003108 Walker B; other site 931281003109 D-loop; other site 931281003110 H-loop/switch region; other site 931281003111 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc; cd04582 931281003112 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 931281003113 dimer interface [polypeptide binding]; other site 931281003114 conserved gate region; other site 931281003115 ABC-ATPase subunit interface; other site 931281003116 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 931281003117 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 931281003118 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 931281003119 dimer interface [polypeptide binding]; other site 931281003120 conserved gate region; other site 931281003121 putative PBP binding loops; other site 931281003122 ABC-ATPase subunit interface; other site 931281003123 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 931281003124 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 931281003125 G1 box; other site 931281003126 putative GEF interaction site [polypeptide binding]; other site 931281003127 GTP/Mg2+ binding site [chemical binding]; other site 931281003128 Switch I region; other site 931281003129 G2 box; other site 931281003130 G3 box; other site 931281003131 Switch II region; other site 931281003132 G4 box; other site 931281003133 G5 box; other site 931281003134 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 931281003135 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 931281003136 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 931281003137 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 931281003138 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 931281003139 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 931281003140 SnoaL-like domain; Region: SnoaL_2; pfam12680 931281003141 Helix-turn-helix domain; Region: HTH_18; pfam12833 931281003142 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281003143 EamA-like transporter family; Region: EamA; cl17759 931281003144 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 931281003145 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 931281003146 Walker A/P-loop; other site 931281003147 ATP binding site [chemical binding]; other site 931281003148 Q-loop/lid; other site 931281003149 ABC transporter signature motif; other site 931281003150 Walker B; other site 931281003151 D-loop; other site 931281003152 H-loop/switch region; other site 931281003153 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 931281003154 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 931281003155 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 931281003156 Walker A/P-loop; other site 931281003157 ATP binding site [chemical binding]; other site 931281003158 Q-loop/lid; other site 931281003159 ABC transporter signature motif; other site 931281003160 Walker B; other site 931281003161 D-loop; other site 931281003162 H-loop/switch region; other site 931281003163 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 931281003164 dipeptide transporter; Provisional; Region: PRK10913 931281003165 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 931281003166 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 931281003167 putative PBP binding loops; other site 931281003168 dimer interface [polypeptide binding]; other site 931281003169 ABC-ATPase subunit interface; other site 931281003170 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 931281003171 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 931281003172 dimer interface [polypeptide binding]; other site 931281003173 conserved gate region; other site 931281003174 putative PBP binding loops; other site 931281003175 ABC-ATPase subunit interface; other site 931281003176 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 931281003177 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 931281003178 peptide binding site [polypeptide binding]; other site 931281003179 outer membrane porin, OprD family; Region: OprD; pfam03573 931281003180 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 931281003181 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 931281003182 peptide binding site [polypeptide binding]; other site 931281003183 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 931281003184 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 931281003185 peptide binding site [polypeptide binding]; other site 931281003186 Protein of unknown function (DUF541); Region: SIMPL; cl01077 931281003187 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 931281003188 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 931281003189 ATP binding site [chemical binding]; other site 931281003190 G-X-G motif; other site 931281003191 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 931281003192 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281003193 active site 931281003194 phosphorylation site [posttranslational modification] 931281003195 intermolecular recognition site; other site 931281003196 dimerization interface [polypeptide binding]; other site 931281003197 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 931281003198 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 931281003199 Beta-lactamase; Region: Beta-lactamase; pfam00144 931281003200 YceI-like domain; Region: YceI; pfam04264 931281003201 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 931281003202 PLD-like domain; Region: PLDc_2; pfam13091 931281003203 putative active site [active] 931281003204 catalytic site [active] 931281003205 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 931281003206 PLD-like domain; Region: PLDc_2; pfam13091 931281003207 putative active site [active] 931281003208 catalytic site [active] 931281003209 intracellular protease, PfpI family; Region: PfpI; TIGR01382 931281003210 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 931281003211 conserved cys residue [active] 931281003212 conserved hypothetical protein, steroid delta-isomerase-related; Region: TIGR02096 931281003213 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 931281003214 Coenzyme A binding pocket [chemical binding]; other site 931281003215 Predicted amidohydrolase [General function prediction only]; Region: COG0388 931281003216 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 931281003217 putative active site [active] 931281003218 catalytic triad [active] 931281003219 putative dimer interface [polypeptide binding]; other site 931281003220 putative fumarate hydratase; Provisional; Region: PRK15392 931281003221 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 931281003222 Fumarase C-terminus; Region: Fumerase_C; pfam05683 931281003223 hypothetical protein; Provisional; Region: PRK05713 931281003224 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 931281003225 catalytic loop [active] 931281003226 iron binding site [ion binding]; other site 931281003227 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an N-terminal Iron-Sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible...; Region: FNR_N-term_Iron_sulfur_binding; cd06194 931281003228 FAD binding pocket [chemical binding]; other site 931281003229 FAD binding motif [chemical binding]; other site 931281003230 phosphate binding motif [ion binding]; other site 931281003231 beta-alpha-beta structure motif; other site 931281003232 NAD binding pocket [chemical binding]; other site 931281003233 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 931281003234 active site 931281003235 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 931281003236 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281003237 active site 931281003238 phosphorylation site [posttranslational modification] 931281003239 intermolecular recognition site; other site 931281003240 dimerization interface [polypeptide binding]; other site 931281003241 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 931281003242 DNA binding site [nucleotide binding] 931281003243 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 931281003244 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 931281003245 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 931281003246 dimer interface [polypeptide binding]; other site 931281003247 phosphorylation site [posttranslational modification] 931281003248 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 931281003249 ATP binding site [chemical binding]; other site 931281003250 Mg2+ binding site [ion binding]; other site 931281003251 G-X-G motif; other site 931281003252 Methyltransferase domain; Region: Methyltransf_23; pfam13489 931281003253 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 931281003254 S-adenosylmethionine binding site [chemical binding]; other site 931281003255 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 931281003256 multidrug efflux protein; Reviewed; Region: PRK09579 931281003257 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 931281003258 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 931281003259 HlyD family secretion protein; Region: HlyD_3; pfam13437 931281003260 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3490 931281003261 Imelysin; Region: Peptidase_M75; cl09159 931281003262 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 931281003263 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 931281003264 Uncharacterized iron-regulated protein [Inorganic ion transport and metabolism]; Region: IrpA; COG3487 931281003265 biofilm formation regulator HmsP; Provisional; Region: PRK11829 931281003266 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281003267 metal binding site [ion binding]; metal-binding site 931281003268 active site 931281003269 I-site; other site 931281003270 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 931281003271 superoxide dismutase; Provisional; Region: PRK10543 931281003272 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 931281003273 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 931281003274 Lysine efflux permease [General function prediction only]; Region: COG1279 931281003275 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 931281003276 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281003277 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 931281003278 dimerization interface [polypeptide binding]; other site 931281003279 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 931281003280 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 931281003281 NAD(P) binding site [chemical binding]; other site 931281003282 active site 931281003283 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 931281003284 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 931281003285 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 931281003286 FMN binding site [chemical binding]; other site 931281003287 active site 931281003288 substrate binding site [chemical binding]; other site 931281003289 catalytic residue [active] 931281003290 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 931281003291 dimerization interface [polypeptide binding]; other site 931281003292 putative DNA binding site [nucleotide binding]; other site 931281003293 putative Zn2+ binding site [ion binding]; other site 931281003294 Protein of unknown function, DUF479; Region: DUF479; cl01203 931281003295 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 931281003296 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 931281003297 putative acyl-acceptor binding pocket; other site 931281003298 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 931281003299 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 931281003300 Predicted permeases [General function prediction only]; Region: COG0679 931281003301 aromatic amino acid transporter; Provisional; Region: PRK10238 931281003302 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 931281003303 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 931281003304 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 931281003305 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 931281003306 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 931281003307 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 931281003308 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 931281003309 GatB domain; Region: GatB_Yqey; smart00845 931281003310 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 931281003311 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 931281003312 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 931281003313 rod shape-determining protein MreB; Provisional; Region: PRK13927 931281003314 MreB and similar proteins; Region: MreB_like; cd10225 931281003315 nucleotide binding site [chemical binding]; other site 931281003316 Mg binding site [ion binding]; other site 931281003317 putative protofilament interaction site [polypeptide binding]; other site 931281003318 RodZ interaction site [polypeptide binding]; other site 931281003319 rod shape-determining protein MreC; Provisional; Region: PRK13922 931281003320 rod shape-determining protein MreC; Region: MreC; pfam04085 931281003321 rod shape-determining protein MreD; Region: MreD; cl01087 931281003322 Maf-like protein; Region: Maf; pfam02545 931281003323 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 931281003324 active site 931281003325 dimer interface [polypeptide binding]; other site 931281003326 ribonuclease G; Provisional; Region: PRK11712 931281003327 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 931281003328 homodimer interface [polypeptide binding]; other site 931281003329 oligonucleotide binding site [chemical binding]; other site 931281003330 TIGR02099 family protein; Region: TIGR02099 931281003331 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 931281003332 nitrilase; Region: PLN02798 931281003333 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 931281003334 putative active site [active] 931281003335 catalytic triad [active] 931281003336 dimer interface [polypeptide binding]; other site 931281003337 protease TldD; Provisional; Region: tldD; PRK10735 931281003338 hypothetical protein; Provisional; Region: PRK05255 931281003339 peptidase PmbA; Provisional; Region: PRK11040 931281003340 fumarate hydratase; Reviewed; Region: fumC; PRK00485 931281003341 Class II fumarases; Region: Fumarase_classII; cd01362 931281003342 active site 931281003343 tetramer interface [polypeptide binding]; other site 931281003344 Protein of unknown function (DUF2753); Region: DUF2753; pfam10952 931281003345 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 931281003346 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 931281003347 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 931281003348 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 931281003349 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 931281003350 dimerization domain swap beta strand [polypeptide binding]; other site 931281003351 regulatory protein interface [polypeptide binding]; other site 931281003352 active site 931281003353 regulatory phosphorylation site [posttranslational modification]; other site 931281003354 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 931281003355 AAA domain; Region: AAA_18; pfam13238 931281003356 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 931281003357 active site 931281003358 phosphorylation site [posttranslational modification] 931281003359 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 931281003360 30S subunit binding site; other site 931281003361 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 931281003362 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 931281003363 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 931281003364 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 931281003365 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 931281003366 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 931281003367 Walker A/P-loop; other site 931281003368 ATP binding site [chemical binding]; other site 931281003369 Q-loop/lid; other site 931281003370 ABC transporter signature motif; other site 931281003371 Walker B; other site 931281003372 D-loop; other site 931281003373 H-loop/switch region; other site 931281003374 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 931281003375 OstA-like protein; Region: OstA; pfam03968 931281003376 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 931281003377 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 931281003378 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 931281003379 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 931281003380 active site 931281003381 motif I; other site 931281003382 motif II; other site 931281003383 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 931281003384 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 931281003385 putative active site [active] 931281003386 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 931281003387 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 931281003388 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 931281003389 Walker A/P-loop; other site 931281003390 ATP binding site [chemical binding]; other site 931281003391 Q-loop/lid; other site 931281003392 ABC transporter signature motif; other site 931281003393 Walker B; other site 931281003394 D-loop; other site 931281003395 H-loop/switch region; other site 931281003396 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 931281003397 Permease; Region: Permease; cl00510 931281003398 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 931281003399 mce related protein; Region: MCE; pfam02470 931281003400 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 931281003401 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 931281003402 anti sigma factor interaction site; other site 931281003403 regulatory phosphorylation site [posttranslational modification]; other site 931281003404 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 931281003405 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 931281003406 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 931281003407 hinge; other site 931281003408 active site 931281003409 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 931281003410 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 931281003411 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 931281003412 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 931281003413 NAD binding site [chemical binding]; other site 931281003414 dimerization interface [polypeptide binding]; other site 931281003415 product binding site; other site 931281003416 substrate binding site [chemical binding]; other site 931281003417 zinc binding site [ion binding]; other site 931281003418 catalytic residues [active] 931281003419 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 931281003420 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 931281003421 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281003422 homodimer interface [polypeptide binding]; other site 931281003423 catalytic residue [active] 931281003424 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 931281003425 Transcriptional regulators [Transcription]; Region: FadR; COG2186 931281003426 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281003427 DNA-binding site [nucleotide binding]; DNA binding site 931281003428 FCD domain; Region: FCD; pfam07729 931281003429 cyanate transporter; Region: CynX; TIGR00896 931281003430 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 931281003431 SnoaL-like domain; Region: SnoaL_2; pfam12680 931281003432 Nucleoid-associated protein [General function prediction only]; Region: COG3081 931281003433 nucleoid-associated protein NdpA; Validated; Region: PRK00378 931281003434 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 931281003435 IHF - DNA interface [nucleotide binding]; other site 931281003436 IHF dimer interface [polypeptide binding]; other site 931281003437 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 931281003438 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 931281003439 S-adenosylmethionine binding site [chemical binding]; other site 931281003440 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 931281003441 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 931281003442 HIGH motif; other site 931281003443 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 931281003444 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 931281003445 active site 931281003446 KMSKS motif; other site 931281003447 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 931281003448 tRNA binding surface [nucleotide binding]; other site 931281003449 anticodon binding site; other site 931281003450 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 931281003451 DNA polymerase III subunit chi; Validated; Region: PRK05728 931281003452 multifunctional aminopeptidase A; Provisional; Region: PRK00913 931281003453 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 931281003454 interface (dimer of trimers) [polypeptide binding]; other site 931281003455 Substrate-binding/catalytic site; other site 931281003456 Zn-binding sites [ion binding]; other site 931281003457 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 931281003458 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 931281003459 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 931281003460 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 931281003461 RDD family; Region: RDD; pfam06271 931281003462 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 931281003463 DNA-binding site [nucleotide binding]; DNA binding site 931281003464 RNA-binding motif; other site 931281003465 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 931281003466 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 931281003467 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 931281003468 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 931281003469 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 931281003470 glycine dehydrogenase; Provisional; Region: PRK05367 931281003471 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 931281003472 tetramer interface [polypeptide binding]; other site 931281003473 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281003474 catalytic residue [active] 931281003475 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 931281003476 tetramer interface [polypeptide binding]; other site 931281003477 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281003478 catalytic residue [active] 931281003479 glycine cleavage system protein H; Provisional; Region: PRK13380 931281003480 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 931281003481 lipoyl attachment site [posttranslational modification]; other site 931281003482 Predicted membrane protein [Function unknown]; Region: COG2259 931281003483 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 931281003484 hypothetical protein; Provisional; Region: PRK05409 931281003485 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 931281003486 RNA polymerase sigma factor; Provisional; Region: PRK12536 931281003487 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 931281003488 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 931281003489 DNA binding residues [nucleotide binding] 931281003490 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 931281003491 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 931281003492 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 931281003493 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 931281003494 putative aromatic amino acid binding site; other site 931281003495 PAS domain; Region: PAS; smart00091 931281003496 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 931281003497 Walker A motif; other site 931281003498 ATP binding site [chemical binding]; other site 931281003499 Walker B motif; other site 931281003500 arginine finger; other site 931281003501 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 931281003502 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 931281003503 putative substrate binding site [chemical binding]; other site 931281003504 nucleotide binding site [chemical binding]; other site 931281003505 nucleotide binding site [chemical binding]; other site 931281003506 homodimer interface [polypeptide binding]; other site 931281003507 ornithine carbamoyltransferase; Validated; Region: PRK02102 931281003508 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 931281003509 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 931281003510 arginine deiminase; Provisional; Region: PRK01388 931281003511 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 931281003512 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 931281003513 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 931281003514 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 931281003515 heme binding pocket [chemical binding]; other site 931281003516 heme ligand [chemical binding]; other site 931281003517 Secretin and TonB N terminus short domain; Region: STN; smart00965 931281003518 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 931281003519 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 931281003520 N-terminal plug; other site 931281003521 ligand-binding site [chemical binding]; other site 931281003522 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 931281003523 FecR protein; Region: FecR; pfam04773 931281003524 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 931281003525 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 931281003526 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 931281003527 DNA binding residues [nucleotide binding] 931281003528 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 931281003529 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 931281003530 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 931281003531 phosphogluconate dehydratase; Validated; Region: PRK09054 931281003532 6-phosphogluconate dehydratase; Region: edd; TIGR01196 931281003533 glucokinase; Provisional; Region: glk; PRK00292 931281003534 glucokinase, proteobacterial type; Region: glk; TIGR00749 931281003535 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 931281003536 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281003537 active site 931281003538 phosphorylation site [posttranslational modification] 931281003539 intermolecular recognition site; other site 931281003540 dimerization interface [polypeptide binding]; other site 931281003541 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 931281003542 DNA binding site [nucleotide binding] 931281003543 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 931281003544 dimerization interface [polypeptide binding]; other site 931281003545 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 931281003546 ATP binding site [chemical binding]; other site 931281003547 Mg2+ binding site [ion binding]; other site 931281003548 G-X-G motif; other site 931281003549 N-acylglucosamine 2-epimerase (GlcNAc 2-epimerase); Region: GlcNAc_2-epim; pfam07221 931281003550 putative active cleft [active] 931281003551 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 931281003552 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 931281003553 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 931281003554 dimer interface [polypeptide binding]; other site 931281003555 conserved gate region; other site 931281003556 putative PBP binding loops; other site 931281003557 ABC-ATPase subunit interface; other site 931281003558 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 931281003559 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 931281003560 dimer interface [polypeptide binding]; other site 931281003561 conserved gate region; other site 931281003562 putative PBP binding loops; other site 931281003563 ABC-ATPase subunit interface; other site 931281003564 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 931281003565 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 931281003566 Walker A/P-loop; other site 931281003567 ATP binding site [chemical binding]; other site 931281003568 Q-loop/lid; other site 931281003569 ABC transporter signature motif; other site 931281003570 Walker B; other site 931281003571 D-loop; other site 931281003572 H-loop/switch region; other site 931281003573 TOBE domain; Region: TOBE_2; pfam08402 931281003574 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 931281003575 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 931281003576 active site 931281003577 phosphate binding residues; other site 931281003578 catalytic residues [active] 931281003579 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 931281003580 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 931281003581 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 931281003582 putative active site [active] 931281003583 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 931281003584 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 931281003585 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 931281003586 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 931281003587 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 931281003588 putative active site [active] 931281003589 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 931281003590 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 931281003591 active site 931281003592 intersubunit interface [polypeptide binding]; other site 931281003593 catalytic residue [active] 931281003594 2-isopropylmalate synthase; Validated; Region: PRK03739 931281003595 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 931281003596 active site 931281003597 catalytic residues [active] 931281003598 metal binding site [ion binding]; metal-binding site 931281003599 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 931281003600 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 931281003601 Glypican; Region: Glypican; pfam01153 931281003602 Peptidase family M23; Region: Peptidase_M23; pfam01551 931281003603 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 931281003604 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 931281003605 generic binding surface II; other site 931281003606 generic binding surface I; other site 931281003607 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281003608 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281003609 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 931281003610 dimerization interface [polypeptide binding]; other site 931281003611 substrate binding pocket [chemical binding]; other site 931281003612 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 931281003613 DNA polymerase II large subunit; Provisional; Region: PRK14714 931281003614 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 931281003615 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 931281003616 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 931281003617 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 931281003618 active site 931281003619 GMP synthase; Reviewed; Region: guaA; PRK00074 931281003620 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 931281003621 AMP/PPi binding site [chemical binding]; other site 931281003622 candidate oxyanion hole; other site 931281003623 catalytic triad [active] 931281003624 potential glutamine specificity residues [chemical binding]; other site 931281003625 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 931281003626 ATP Binding subdomain [chemical binding]; other site 931281003627 Ligand Binding sites [chemical binding]; other site 931281003628 Dimerization subdomain; other site 931281003629 Sulfatase; Region: Sulfatase; cl17466 931281003630 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 931281003631 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 931281003632 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 931281003633 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 931281003634 nucleoside/Zn binding site; other site 931281003635 dimer interface [polypeptide binding]; other site 931281003636 catalytic motif [active] 931281003637 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 931281003638 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281003639 substrate binding pocket [chemical binding]; other site 931281003640 membrane-bound complex binding site; other site 931281003641 hinge residues; other site 931281003642 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 931281003643 N-acetyl-D-glucosamine binding site [chemical binding]; other site 931281003644 catalytic residue [active] 931281003645 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 931281003646 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 931281003647 dimerization interface [polypeptide binding]; other site 931281003648 ATP binding site [chemical binding]; other site 931281003649 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 931281003650 dimerization interface [polypeptide binding]; other site 931281003651 ATP binding site [chemical binding]; other site 931281003652 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 931281003653 putative active site [active] 931281003654 catalytic triad [active] 931281003655 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 931281003656 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 931281003657 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 931281003658 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 931281003659 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 931281003660 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 931281003661 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 931281003662 active site 931281003663 metal binding site [ion binding]; metal-binding site 931281003664 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 931281003665 type II secretion system protein D; Region: type_II_gspD; TIGR02517 931281003666 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 931281003667 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 931281003668 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 931281003669 type II secretion system protein E; Region: type_II_gspE; TIGR02533 931281003670 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 931281003671 Walker A motif; other site 931281003672 ATP binding site [chemical binding]; other site 931281003673 Walker B motif; other site 931281003674 type II secretion system protein F; Region: GspF; TIGR02120 931281003675 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 931281003676 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 931281003677 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 931281003678 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 931281003679 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 931281003680 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 931281003681 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 931281003682 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 931281003683 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 931281003684 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 931281003685 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 931281003686 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 931281003687 GspL periplasmic domain; Region: GspL_C; cl14909 931281003688 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 931281003689 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 931281003690 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 931281003691 FAD binding pocket [chemical binding]; other site 931281003692 FAD binding motif [chemical binding]; other site 931281003693 phosphate binding motif [ion binding]; other site 931281003694 NAD binding pocket [chemical binding]; other site 931281003695 Predicted transcriptional regulators [Transcription]; Region: COG1695 931281003696 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 931281003697 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 931281003698 Transglycosylase; Region: Transgly; pfam00912 931281003699 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 931281003700 Spore germination protein; Region: Spore_permease; cl17796 931281003701 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 931281003702 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 931281003703 active site 931281003704 FMN binding site [chemical binding]; other site 931281003705 substrate binding site [chemical binding]; other site 931281003706 3Fe-4S cluster binding site [ion binding]; other site 931281003707 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 931281003708 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 931281003709 ATP binding site [chemical binding]; other site 931281003710 putative Mg++ binding site [ion binding]; other site 931281003711 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 931281003712 nucleotide binding region [chemical binding]; other site 931281003713 ATP-binding site [chemical binding]; other site 931281003714 DEAD/H associated; Region: DEAD_assoc; pfam08494 931281003715 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_31; cd04690 931281003716 nudix motif; other site 931281003717 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 931281003718 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281003719 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 931281003720 putative dimerization interface [polypeptide binding]; other site 931281003721 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 931281003722 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 931281003723 GlpM protein; Region: GlpM; pfam06942 931281003724 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 931281003725 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281003726 active site 931281003727 phosphorylation site [posttranslational modification] 931281003728 intermolecular recognition site; other site 931281003729 dimerization interface [polypeptide binding]; other site 931281003730 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 931281003731 Walker A motif; other site 931281003732 ATP binding site [chemical binding]; other site 931281003733 Walker B motif; other site 931281003734 arginine finger; other site 931281003735 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 931281003736 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 931281003737 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 931281003738 dimer interface [polypeptide binding]; other site 931281003739 phosphorylation site [posttranslational modification] 931281003740 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 931281003741 Mg2+ binding site [ion binding]; other site 931281003742 G-X-G motif; other site 931281003743 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 931281003744 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 931281003745 Walker A/P-loop; other site 931281003746 ATP binding site [chemical binding]; other site 931281003747 Q-loop/lid; other site 931281003748 ABC transporter signature motif; other site 931281003749 Walker B; other site 931281003750 D-loop; other site 931281003751 H-loop/switch region; other site 931281003752 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 931281003753 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 931281003754 dimer interface [polypeptide binding]; other site 931281003755 conserved gate region; other site 931281003756 putative PBP binding loops; other site 931281003757 ABC-ATPase subunit interface; other site 931281003758 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 931281003759 dimer interface [polypeptide binding]; other site 931281003760 conserved gate region; other site 931281003761 putative PBP binding loops; other site 931281003762 ABC-ATPase subunit interface; other site 931281003763 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 931281003764 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281003765 substrate binding pocket [chemical binding]; other site 931281003766 membrane-bound complex binding site; other site 931281003767 hinge residues; other site 931281003768 Leucine rich repeat; Region: LRR_8; pfam13855 931281003769 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 931281003770 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 931281003771 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 931281003772 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 931281003773 glycerol kinase; Provisional; Region: glpK; PRK00047 931281003774 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 931281003775 N- and C-terminal domain interface [polypeptide binding]; other site 931281003776 active site 931281003777 MgATP binding site [chemical binding]; other site 931281003778 catalytic site [active] 931281003779 metal binding site [ion binding]; metal-binding site 931281003780 glycerol binding site [chemical binding]; other site 931281003781 homotetramer interface [polypeptide binding]; other site 931281003782 homodimer interface [polypeptide binding]; other site 931281003783 protein IIAGlc interface [polypeptide binding]; other site 931281003784 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 931281003785 amphipathic channel; other site 931281003786 Asn-Pro-Ala signature motifs; other site 931281003787 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 931281003788 putative deacylase active site [active] 931281003789 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 931281003790 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 931281003791 Walker A/P-loop; other site 931281003792 ATP binding site [chemical binding]; other site 931281003793 Q-loop/lid; other site 931281003794 ABC transporter signature motif; other site 931281003795 Walker B; other site 931281003796 D-loop; other site 931281003797 H-loop/switch region; other site 931281003798 TOBE domain; Region: TOBE_2; pfam08402 931281003799 ornithine carbamoyltransferase; Provisional; Region: PRK00779 931281003800 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 931281003801 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 931281003802 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 931281003803 The MopB_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to...; Region: MopB_1; cd02762 931281003804 putative [Fe4-S4] binding site [ion binding]; other site 931281003805 putative molybdopterin cofactor binding site [chemical binding]; other site 931281003806 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_1; cd02782 931281003807 putative molybdopterin cofactor binding site; other site 931281003808 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 931281003809 putative GSH binding site [chemical binding]; other site 931281003810 catalytic residues [active] 931281003811 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 931281003812 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 931281003813 heme binding site [chemical binding]; other site 931281003814 ferroxidase pore; other site 931281003815 ferroxidase diiron center [ion binding]; other site 931281003816 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 931281003817 peroxidase; Provisional; Region: PRK15000 931281003818 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 931281003819 dimer interface [polypeptide binding]; other site 931281003820 decamer (pentamer of dimers) interface [polypeptide binding]; other site 931281003821 catalytic triad [active] 931281003822 peroxidatic and resolving cysteines [active] 931281003823 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 931281003824 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 931281003825 dimer interface [polypeptide binding]; other site 931281003826 catalytic site [active] 931281003827 putative active site [active] 931281003828 putative substrate binding site [chemical binding]; other site 931281003829 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 931281003830 active site 931281003831 substrate binding pocket [chemical binding]; other site 931281003832 dimer interface [polypeptide binding]; other site 931281003833 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 931281003834 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 931281003835 ligand binding site [chemical binding]; other site 931281003836 argininosuccinate synthase; Provisional; Region: PRK13820 931281003837 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 931281003838 ANP binding site [chemical binding]; other site 931281003839 Substrate Binding Site II [chemical binding]; other site 931281003840 Substrate Binding Site I [chemical binding]; other site 931281003841 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 931281003842 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281003843 active site 931281003844 phosphorylation site [posttranslational modification] 931281003845 intermolecular recognition site; other site 931281003846 dimerization interface [polypeptide binding]; other site 931281003847 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 931281003848 DNA binding residues [nucleotide binding] 931281003849 dimerization interface [polypeptide binding]; other site 931281003850 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 931281003851 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 931281003852 minor groove reading motif; other site 931281003853 helix-hairpin-helix signature motif; other site 931281003854 substrate binding pocket [chemical binding]; other site 931281003855 active site 931281003856 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 931281003857 electron transport complex, RnfABCDGE type, G subunit; Region: rnfG; TIGR01947 931281003858 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 931281003859 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 931281003860 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 931281003861 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 931281003862 active site 931281003863 HIGH motif; other site 931281003864 KMSKS motif; other site 931281003865 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 931281003866 tRNA binding surface [nucleotide binding]; other site 931281003867 anticodon binding site; other site 931281003868 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 931281003869 dimer interface [polypeptide binding]; other site 931281003870 putative tRNA-binding site [nucleotide binding]; other site 931281003871 antiporter inner membrane protein; Provisional; Region: PRK11670 931281003872 Domain of unknown function DUF59; Region: DUF59; pfam01883 931281003873 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 931281003874 Walker A motif; other site 931281003875 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 931281003876 DNA-binding site [nucleotide binding]; DNA binding site 931281003877 RNA-binding motif; other site 931281003878 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 931281003879 trimer interface [polypeptide binding]; other site 931281003880 active site 931281003881 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 931281003882 putative active site [active] 931281003883 putative metal binding site [ion binding]; other site 931281003884 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 931281003885 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 931281003886 ATP binding site [chemical binding]; other site 931281003887 putative Mg++ binding site [ion binding]; other site 931281003888 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 931281003889 nucleotide binding region [chemical binding]; other site 931281003890 ATP-binding site [chemical binding]; other site 931281003891 DEAD/H associated; Region: DEAD_assoc; pfam08494 931281003892 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 931281003893 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 931281003894 active site 931281003895 Zn binding site [ion binding]; other site 931281003896 ATP-dependent DNA ligase; Validated; Region: PRK09247 931281003897 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 931281003898 active site 931281003899 DNA binding site [nucleotide binding] 931281003900 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 931281003901 DNA binding site [nucleotide binding] 931281003902 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 931281003903 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 931281003904 Penicillin amidase; Region: Penicil_amidase; pfam01804 931281003905 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 931281003906 active site 931281003907 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 931281003908 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281003909 DNA-binding site [nucleotide binding]; DNA binding site 931281003910 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 931281003911 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281003912 homodimer interface [polypeptide binding]; other site 931281003913 catalytic residue [active] 931281003914 serine O-acetyltransferase; Region: cysE; TIGR01172 931281003915 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 931281003916 trimer interface [polypeptide binding]; other site 931281003917 active site 931281003918 substrate binding site [chemical binding]; other site 931281003919 CoA binding site [chemical binding]; other site 931281003920 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 931281003921 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 931281003922 Major Facilitator Superfamily; Region: MFS_1; pfam07690 931281003923 putative substrate translocation pore; other site 931281003924 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 931281003925 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 931281003926 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 931281003927 catalytic residue [active] 931281003928 SEC-C motif; Region: SEC-C; pfam02810 931281003929 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 931281003930 hypothetical protein; Provisional; Region: PRK00183 931281003931 SEC-C motif; Region: SEC-C; pfam02810 931281003932 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 931281003933 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 931281003934 ligand binding site [chemical binding]; other site 931281003935 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 931281003936 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 931281003937 ligand binding site [chemical binding]; other site 931281003938 Protein of unknown function (DUF1145); Region: DUF1145; pfam06611 931281003939 Predicted integral membrane protein [Function unknown]; Region: COG5615 931281003940 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 931281003941 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 931281003942 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 931281003943 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 931281003944 Beta-lactamase; Region: Beta-lactamase; pfam00144 931281003945 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 931281003946 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 931281003947 ligand binding site [chemical binding]; other site 931281003948 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 931281003949 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 931281003950 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 931281003951 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 931281003952 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 931281003953 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 931281003954 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 931281003955 Predicted membrane protein [Function unknown]; Region: COG3650 931281003956 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 931281003957 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 931281003958 Walker A/P-loop; other site 931281003959 ATP binding site [chemical binding]; other site 931281003960 Q-loop/lid; other site 931281003961 ABC transporter signature motif; other site 931281003962 Walker B; other site 931281003963 D-loop; other site 931281003964 H-loop/switch region; other site 931281003965 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 931281003966 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 931281003967 Walker A/P-loop; other site 931281003968 ATP binding site [chemical binding]; other site 931281003969 Q-loop/lid; other site 931281003970 ABC transporter signature motif; other site 931281003971 Walker B; other site 931281003972 D-loop; other site 931281003973 H-loop/switch region; other site 931281003974 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 931281003975 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 931281003976 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 931281003977 TM-ABC transporter signature motif; other site 931281003978 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 931281003979 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 931281003980 TM-ABC transporter signature motif; other site 931281003981 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 931281003982 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 931281003983 dimerization interface [polypeptide binding]; other site 931281003984 ligand binding site [chemical binding]; other site 931281003985 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 931281003986 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 931281003987 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 931281003988 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 931281003989 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 931281003990 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281003991 metal binding site [ion binding]; metal-binding site 931281003992 active site 931281003993 I-site; other site 931281003994 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 931281003995 ATP-dependent helicase HepA; Validated; Region: PRK04914 931281003996 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 931281003997 ATP binding site [chemical binding]; other site 931281003998 putative Mg++ binding site [ion binding]; other site 931281003999 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 931281004000 nucleotide binding region [chemical binding]; other site 931281004001 ATP-binding site [chemical binding]; other site 931281004002 Fusaric acid resistance protein family; Region: FUSC; pfam04632 931281004003 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 931281004004 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 931281004005 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 931281004006 HlyD family secretion protein; Region: HlyD_3; pfam13437 931281004007 Protein of unknown function (DUF2025); Region: DUF2025; pfam09634 931281004008 CHASE4 domain; Region: CHASE4; pfam05228 931281004009 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 931281004010 PAS domain; Region: PAS_9; pfam13426 931281004011 putative active site [active] 931281004012 heme pocket [chemical binding]; other site 931281004013 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 931281004014 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281004015 metal binding site [ion binding]; metal-binding site 931281004016 active site 931281004017 I-site; other site 931281004018 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 931281004019 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 931281004020 MASE2 domain; Region: MASE2; pfam05230 931281004021 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281004022 metal binding site [ion binding]; metal-binding site 931281004023 active site 931281004024 I-site; other site 931281004025 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 931281004026 potential frameshift: common BLAST hit: gi|148547614|ref|YP_001267716.1| acetolactate synthase 931281004027 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 931281004028 PYR/PP interface [polypeptide binding]; other site 931281004029 dimer interface [polypeptide binding]; other site 931281004030 TPP binding site [chemical binding]; other site 931281004031 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 931281004032 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 931281004033 TPP-binding site [chemical binding]; other site 931281004034 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 931281004035 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 931281004036 Predicted amidohydrolase [General function prediction only]; Region: COG0388 931281004037 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_2; cd07580 931281004038 putative active site [active] 931281004039 catalytic triad [active] 931281004040 putative dimer interface [polypeptide binding]; other site 931281004041 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 931281004042 active site 931281004043 homotetramer interface [polypeptide binding]; other site 931281004044 homodimer interface [polypeptide binding]; other site 931281004045 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 931281004046 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 931281004047 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 931281004048 putative C-terminal domain interface [polypeptide binding]; other site 931281004049 putative GSH binding site (G-site) [chemical binding]; other site 931281004050 putative dimer interface [polypeptide binding]; other site 931281004051 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 931281004052 putative N-terminal domain interface [polypeptide binding]; other site 931281004053 putative dimer interface [polypeptide binding]; other site 931281004054 putative substrate binding pocket (H-site) [chemical binding]; other site 931281004055 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 931281004056 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 931281004057 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 931281004058 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 931281004059 FAD binding pocket [chemical binding]; other site 931281004060 FAD binding motif [chemical binding]; other site 931281004061 phosphate binding motif [ion binding]; other site 931281004062 beta-alpha-beta structure motif; other site 931281004063 NAD binding pocket [chemical binding]; other site 931281004064 Heme binding pocket [chemical binding]; other site 931281004065 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 931281004066 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 931281004067 catalytic loop [active] 931281004068 iron binding site [ion binding]; other site 931281004069 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281004070 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281004071 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 931281004072 putative effector binding pocket; other site 931281004073 putative dimerization interface [polypeptide binding]; other site 931281004074 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 931281004075 active site 931281004076 catalytic residues [active] 931281004077 DctM-like transporters; Region: DctM; pfam06808 931281004078 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 931281004079 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 931281004080 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 931281004081 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 931281004082 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 931281004083 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 931281004084 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 931281004085 extended (e) SDRs; Region: SDR_e; cd08946 931281004086 active site 931281004087 active site 931281004088 substrate binding site [chemical binding]; other site 931281004089 outer membrane porin, OprD family; Region: OprD; pfam03573 931281004090 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 931281004091 dimer interface [polypeptide binding]; other site 931281004092 putative radical transfer pathway; other site 931281004093 diiron center [ion binding]; other site 931281004094 tyrosyl radical; other site 931281004095 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 931281004096 ATP cone domain; Region: ATP-cone; pfam03477 931281004097 ATP cone domain; Region: ATP-cone; pfam03477 931281004098 Class I ribonucleotide reductase; Region: RNR_I; cd01679 931281004099 active site 931281004100 dimer interface [polypeptide binding]; other site 931281004101 catalytic residues [active] 931281004102 effector binding site; other site 931281004103 R2 peptide binding site; other site 931281004104 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 931281004105 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281004106 active site 931281004107 phosphorylation site [posttranslational modification] 931281004108 intermolecular recognition site; other site 931281004109 dimerization interface [polypeptide binding]; other site 931281004110 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 931281004111 DNA binding site [nucleotide binding] 931281004112 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 931281004113 dimerization interface [polypeptide binding]; other site 931281004114 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 931281004115 dimer interface [polypeptide binding]; other site 931281004116 phosphorylation site [posttranslational modification] 931281004117 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 931281004118 ATP binding site [chemical binding]; other site 931281004119 Mg2+ binding site [ion binding]; other site 931281004120 G-X-G motif; other site 931281004121 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 931281004122 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 931281004123 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 931281004124 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 931281004125 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 931281004126 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 931281004127 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281004128 active site 931281004129 phosphorylation site [posttranslational modification] 931281004130 intermolecular recognition site; other site 931281004131 dimerization interface [polypeptide binding]; other site 931281004132 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 931281004133 DNA binding site [nucleotide binding] 931281004134 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 931281004135 dimer interface [polypeptide binding]; other site 931281004136 phosphorylation site [posttranslational modification] 931281004137 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 931281004138 ATP binding site [chemical binding]; other site 931281004139 Mg2+ binding site [ion binding]; other site 931281004140 G-X-G motif; other site 931281004141 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 931281004142 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 931281004143 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 931281004144 homodimer interaction site [polypeptide binding]; other site 931281004145 cofactor binding site; other site 931281004146 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 931281004147 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 931281004148 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 931281004149 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 931281004150 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 931281004151 RNA binding surface [nucleotide binding]; other site 931281004152 Pseudouridine synthase, a subgroup of the RsuA family; Region: PSSA_1; cd02555 931281004153 active site 931281004154 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 931281004155 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 931281004156 Coenzyme A binding pocket [chemical binding]; other site 931281004157 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 931281004158 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 931281004159 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 931281004160 FeS/SAM binding site; other site 931281004161 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 931281004162 potassium uptake protein; Region: kup; TIGR00794 931281004163 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 931281004164 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 931281004165 Predicted integral membrane protein [Function unknown]; Region: COG0392 931281004166 Uncharacterized conserved protein [Function unknown]; Region: COG2898 931281004167 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 931281004168 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 931281004169 active site 931281004170 DNA polymerase IV; Validated; Region: PRK02406 931281004171 DNA binding site [nucleotide binding] 931281004172 prolyl-tRNA synthetase; Provisional; Region: PRK09194 931281004173 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 931281004174 dimer interface [polypeptide binding]; other site 931281004175 motif 1; other site 931281004176 active site 931281004177 motif 2; other site 931281004178 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 931281004179 putative deacylase active site [active] 931281004180 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 931281004181 active site 931281004182 motif 3; other site 931281004183 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 931281004184 anticodon binding site; other site 931281004185 outer membrane porin, OprD family; Region: OprD; pfam03573 931281004186 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 931281004187 nucleotide binding site/active site [active] 931281004188 HIT family signature motif; other site 931281004189 catalytic residue [active] 931281004190 hypothetical protein; Provisional; Region: PRK00295 931281004191 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 931281004192 DNA-binding site [nucleotide binding]; DNA binding site 931281004193 RNA-binding motif; other site 931281004194 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 931281004195 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 931281004196 dimerization interface [polypeptide binding]; other site 931281004197 DPS ferroxidase diiron center [ion binding]; other site 931281004198 ion pore; other site 931281004199 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 931281004200 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 931281004201 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 931281004202 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 931281004203 dimer interface [polypeptide binding]; other site 931281004204 anticodon binding site; other site 931281004205 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 931281004206 homodimer interface [polypeptide binding]; other site 931281004207 motif 1; other site 931281004208 active site 931281004209 motif 2; other site 931281004210 GAD domain; Region: GAD; pfam02938 931281004211 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 931281004212 active site 931281004213 motif 3; other site 931281004214 hypothetical protein; Validated; Region: PRK00110 931281004215 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 931281004216 active site 931281004217 putative DNA-binding cleft [nucleotide binding]; other site 931281004218 dimer interface [polypeptide binding]; other site 931281004219 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 931281004220 RuvA N terminal domain; Region: RuvA_N; pfam01330 931281004221 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 931281004222 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 931281004223 Walker A motif; other site 931281004224 ATP binding site [chemical binding]; other site 931281004225 Walker B motif; other site 931281004226 arginine finger; other site 931281004227 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 931281004228 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 931281004229 active site 931281004230 TolQ protein; Region: tolQ; TIGR02796 931281004231 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 931281004232 TolR protein; Region: tolR; TIGR02801 931281004233 potential frameshift: common BLAST hit: gi|26987956|ref|NP_743381.1| biopolymer transport protein TolA 931281004234 TolA protein; Region: tolA_full; TIGR02794 931281004235 TolA protein; Region: tolA_full; TIGR02794 931281004236 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 931281004237 translocation protein TolB; Provisional; Region: tolB; PRK00178 931281004238 TolB amino-terminal domain; Region: TolB_N; pfam04052 931281004239 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 931281004240 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 931281004241 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 931281004242 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 931281004243 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 931281004244 ligand binding site [chemical binding]; other site 931281004245 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 931281004246 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 931281004247 binding surface 931281004248 TPR motif; other site 931281004249 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 931281004250 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 931281004251 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 931281004252 Ligand Binding Site [chemical binding]; other site 931281004253 Cation efflux family; Region: Cation_efflux; cl00316 931281004254 Cache domain; Region: Cache_1; pfam02743 931281004255 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 931281004256 dimerization interface [polypeptide binding]; other site 931281004257 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 931281004258 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 931281004259 dimer interface [polypeptide binding]; other site 931281004260 putative CheW interface [polypeptide binding]; other site 931281004261 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 931281004262 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 931281004263 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 931281004264 quinolinate synthetase; Provisional; Region: PRK09375 931281004265 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 931281004266 Peptidase family M48; Region: Peptidase_M48; cl12018 931281004267 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 931281004268 CPxP motif; other site 931281004269 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 931281004270 Domain of unknown function DUF20; Region: UPF0118; pfam01594 931281004271 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 931281004272 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 931281004273 catalytic triad [active] 931281004274 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 931281004275 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 931281004276 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 931281004277 dihydrodipicolinate synthase; Region: dapA; TIGR00674 931281004278 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 931281004279 dimer interface [polypeptide binding]; other site 931281004280 active site 931281004281 catalytic residue [active] 931281004282 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 931281004283 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 931281004284 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 931281004285 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 931281004286 ATP binding site [chemical binding]; other site 931281004287 active site 931281004288 substrate binding site [chemical binding]; other site 931281004289 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 931281004290 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 931281004291 Bacterial SH3 domain; Region: SH3_3; pfam08239 931281004292 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 931281004293 Protein of unknown function (DUF4223); Region: DUF4223; pfam13978 931281004294 malate:quinone oxidoreductase; Validated; Region: PRK05257 931281004295 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 931281004296 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 931281004297 dimerization interface [polypeptide binding]; other site 931281004298 putative DNA binding site [nucleotide binding]; other site 931281004299 putative Zn2+ binding site [ion binding]; other site 931281004300 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 931281004301 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 931281004302 active site 931281004303 FMN binding site [chemical binding]; other site 931281004304 substrate binding site [chemical binding]; other site 931281004305 homotetramer interface [polypeptide binding]; other site 931281004306 catalytic residue [active] 931281004307 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 931281004308 hydroxyglutarate oxidase; Provisional; Region: PRK11728 931281004309 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 931281004310 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 931281004311 dimer interface [polypeptide binding]; other site 931281004312 NADP binding site [chemical binding]; other site 931281004313 catalytic residues [active] 931281004314 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 931281004315 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 931281004316 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 931281004317 inhibitor site; inhibition site 931281004318 active site 931281004319 dimer interface [polypeptide binding]; other site 931281004320 catalytic residue [active] 931281004321 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 931281004322 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 931281004323 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 931281004324 PAS fold; Region: PAS_4; pfam08448 931281004325 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 931281004326 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281004327 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281004328 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281004329 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 931281004330 dimerization interface [polypeptide binding]; other site 931281004331 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 931281004332 MPT binding site; other site 931281004333 trimer interface [polypeptide binding]; other site 931281004334 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 931281004335 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 931281004336 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 931281004337 FeS/SAM binding site; other site 931281004338 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 931281004339 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 931281004340 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 931281004341 putative molybdopterin cofactor binding site [chemical binding]; other site 931281004342 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 931281004343 putative molybdopterin cofactor binding site; other site 931281004344 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 931281004345 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 931281004346 putative DNA binding site [nucleotide binding]; other site 931281004347 putative Zn2+ binding site [ion binding]; other site 931281004348 AsnC family; Region: AsnC_trans_reg; pfam01037 931281004349 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 931281004350 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 931281004351 homodimer interface [polypeptide binding]; other site 931281004352 substrate-cofactor binding pocket; other site 931281004353 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281004354 catalytic residue [active] 931281004355 Protein of unknown function (DUF465); Region: DUF465; pfam04325 931281004356 putative metal dependent hydrolase; Provisional; Region: PRK11598 931281004357 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 931281004358 Sulfatase; Region: Sulfatase; pfam00884 931281004359 ribonuclease D; Region: rnd; TIGR01388 931281004360 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 931281004361 catalytic site [active] 931281004362 putative active site [active] 931281004363 putative substrate binding site [chemical binding]; other site 931281004364 HRDC domain; Region: HRDC; pfam00570 931281004365 YcgL domain; Region: YcgL; pfam05166 931281004366 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 931281004367 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 931281004368 NAD binding site [chemical binding]; other site 931281004369 ligand binding site [chemical binding]; other site 931281004370 catalytic site [active] 931281004371 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 931281004372 putative FMN binding site [chemical binding]; other site 931281004373 hypothetical protein; Provisional; Region: PRK05170 931281004374 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 931281004375 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 931281004376 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 931281004377 active site 931281004378 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 931281004379 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 931281004380 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 931281004381 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 931281004382 putative active site [active] 931281004383 putative dimer interface [polypeptide binding]; other site 931281004384 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 931281004385 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281004386 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281004387 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 931281004388 dimerization interface [polypeptide binding]; other site 931281004389 benzoate transport; Region: 2A0115; TIGR00895 931281004390 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 931281004391 putative substrate translocation pore; other site 931281004392 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 931281004393 putative active site [active] 931281004394 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 931281004395 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 931281004396 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 931281004397 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 931281004398 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 931281004399 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 931281004400 Walker A motif; other site 931281004401 ATP binding site [chemical binding]; other site 931281004402 Walker B motif; other site 931281004403 arginine finger; other site 931281004404 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 931281004405 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 931281004406 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 931281004407 dimer interface [polypeptide binding]; other site 931281004408 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281004409 catalytic residue [active] 931281004410 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 931281004411 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 931281004412 EamA-like transporter family; Region: EamA; pfam00892 931281004413 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 931281004414 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 931281004415 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; pfam06315 931281004416 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 931281004417 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 931281004418 S1 domain; Region: S1_2; pfam13509 931281004419 S1 domain; Region: S1_2; pfam13509 931281004420 CsbD-like; Region: CsbD; pfam05532 931281004421 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 931281004422 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 931281004423 active site 931281004424 catalytic residues [active] 931281004425 metal binding site [ion binding]; metal-binding site 931281004426 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 931281004427 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 931281004428 SnoaL-like domain; Region: SnoaL_3; pfam13474 931281004429 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 931281004430 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 931281004431 putative hydrophobic ligand binding site [chemical binding]; other site 931281004432 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 931281004433 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 931281004434 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 931281004435 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 931281004436 dimer interaction site [polypeptide binding]; other site 931281004437 substrate-binding tunnel; other site 931281004438 active site 931281004439 catalytic site [active] 931281004440 substrate binding site [chemical binding]; other site 931281004441 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 931281004442 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 931281004443 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 931281004444 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12492 931281004445 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 931281004446 acyl-activating enzyme (AAE) consensus motif; other site 931281004447 putative AMP binding site [chemical binding]; other site 931281004448 putative active site [active] 931281004449 putative CoA binding site [chemical binding]; other site 931281004450 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 931281004451 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 931281004452 acyl-activating enzyme (AAE) consensus motif; other site 931281004453 putative AMP binding site [chemical binding]; other site 931281004454 putative active site [active] 931281004455 putative CoA binding site [chemical binding]; other site 931281004456 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 931281004457 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 931281004458 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 931281004459 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 931281004460 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 931281004461 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 931281004462 ATP binding site [chemical binding]; other site 931281004463 putative Mg++ binding site [ion binding]; other site 931281004464 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 931281004465 nucleotide binding region [chemical binding]; other site 931281004466 ATP-binding site [chemical binding]; other site 931281004467 Helicase associated domain (HA2); Region: HA2; pfam04408 931281004468 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 931281004469 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 931281004470 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 931281004471 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 931281004472 dimer interface [polypeptide binding]; other site 931281004473 active site 931281004474 CoA binding pocket [chemical binding]; other site 931281004475 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 931281004476 Protein of unknown function, DUF482; Region: DUF482; pfam04339 931281004477 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 931281004478 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 931281004479 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 931281004480 Walker A/P-loop; other site 931281004481 ATP binding site [chemical binding]; other site 931281004482 Q-loop/lid; other site 931281004483 ABC transporter signature motif; other site 931281004484 Walker B; other site 931281004485 D-loop; other site 931281004486 H-loop/switch region; other site 931281004487 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 931281004488 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 931281004489 substrate binding site [chemical binding]; other site 931281004490 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 931281004491 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 931281004492 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281004493 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281004494 LysR substrate binding domain; Region: LysR_substrate; pfam03466 931281004495 dimerization interface [polypeptide binding]; other site 931281004496 Protein of unknown function (DUF3316); Region: DUF3316; pfam11777 931281004497 azoreductase; Reviewed; Region: PRK00170 931281004498 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 931281004499 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 931281004500 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 931281004501 Mechanosensitive ion channel; Region: MS_channel; pfam00924 931281004502 helicase 45; Provisional; Region: PTZ00424 931281004503 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 931281004504 ATP binding site [chemical binding]; other site 931281004505 Mg++ binding site [ion binding]; other site 931281004506 motif III; other site 931281004507 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 931281004508 nucleotide binding region [chemical binding]; other site 931281004509 ATP-binding site [chemical binding]; other site 931281004510 Protein of unknown function (DUF497); Region: DUF497; pfam04365 931281004511 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 931281004512 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 931281004513 EamA-like transporter family; Region: EamA; pfam00892 931281004514 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 931281004515 putative substrate translocation pore; other site 931281004516 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281004517 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281004518 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 931281004519 putative dimerization interface [polypeptide binding]; other site 931281004520 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u3; cd11479 931281004521 Na binding site [ion binding]; other site 931281004522 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 931281004523 agmatinase; Region: agmatinase; TIGR01230 931281004524 oligomer interface [polypeptide binding]; other site 931281004525 putative active site [active] 931281004526 Mn binding site [ion binding]; other site 931281004527 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281004528 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281004529 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 931281004530 dimerization interface [polypeptide binding]; other site 931281004531 PAS domain; Region: PAS_9; pfam13426 931281004532 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 931281004533 putative active site [active] 931281004534 heme pocket [chemical binding]; other site 931281004535 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 931281004536 dimer interface [polypeptide binding]; other site 931281004537 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 931281004538 putative CheW interface [polypeptide binding]; other site 931281004539 DTW domain; Region: DTW; cl01221 931281004540 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 931281004541 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 931281004542 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 931281004543 yecA family protein; Region: ygfB_yecA; TIGR02292 931281004544 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 931281004545 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 931281004546 ATP binding site [chemical binding]; other site 931281004547 putative Mg++ binding site [ion binding]; other site 931281004548 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 931281004549 nucleotide binding region [chemical binding]; other site 931281004550 ATP-binding site [chemical binding]; other site 931281004551 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 931281004552 HRDC domain; Region: HRDC; pfam00570 931281004553 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 931281004554 MarR family; Region: MarR_2; pfam12802 931281004555 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 931281004556 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 931281004557 active site 931281004558 nucleophile elbow; other site 931281004559 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 931281004560 Surface antigen; Region: Bac_surface_Ag; pfam01103 931281004561 Uncharacterized protein conserved in bacteria [Posttranslational modification, protein turnover, chaperones]; Region: COG3526 931281004562 EamA-like transporter family; Region: EamA; pfam00892 931281004563 Cupin domain; Region: Cupin_2; cl17218 931281004564 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281004565 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 931281004566 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281004567 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 931281004568 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 931281004569 putative active site [active] 931281004570 putative metal binding site [ion binding]; other site 931281004571 Protein of unknown function (DUF962); Region: DUF962; pfam06127 931281004572 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 931281004573 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 931281004574 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 931281004575 putative FMN binding site [chemical binding]; other site 931281004576 two-component sensor protein; Provisional; Region: cpxA; PRK09470 931281004577 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 931281004578 dimerization interface [polypeptide binding]; other site 931281004579 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 931281004580 ATP binding site [chemical binding]; other site 931281004581 Mg2+ binding site [ion binding]; other site 931281004582 G-X-G motif; other site 931281004583 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 931281004584 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 931281004585 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281004586 active site 931281004587 phosphorylation site [posttranslational modification] 931281004588 intermolecular recognition site; other site 931281004589 dimerization interface [polypeptide binding]; other site 931281004590 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 931281004591 DNA binding site [nucleotide binding] 931281004592 YciI-like protein; Reviewed; Region: PRK11370 931281004593 intracellular septation protein A; Reviewed; Region: PRK00259 931281004594 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 931281004595 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 931281004596 Protein of unknown function (DUF1677); Region: DUF1677; pfam07911 931281004597 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 931281004598 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 931281004599 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 931281004600 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 931281004601 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 931281004602 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 931281004603 RNA binding surface [nucleotide binding]; other site 931281004604 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 931281004605 probable active site [active] 931281004606 aromatic amino acid transporter; Provisional; Region: PRK10238 931281004607 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 931281004608 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281004609 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 931281004610 dimerization interface [polypeptide binding]; other site 931281004611 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 931281004612 FAD binding domain; Region: FAD_binding_4; pfam01565 931281004613 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 931281004614 major facilitator superfamily transporter; Provisional; Region: PRK05122 931281004615 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 931281004616 putative substrate translocation pore; other site 931281004617 The BURPS668_1122 family of deaminases; Region: Toxin-deaminase; pfam14424 931281004618 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 931281004619 aromatic arch; other site 931281004620 DCoH dimer interaction site [polypeptide binding]; other site 931281004621 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 931281004622 DCoH tetramer interaction site [polypeptide binding]; other site 931281004623 substrate binding site [chemical binding]; other site 931281004624 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 931281004625 cofactor binding site; other site 931281004626 metal binding site [ion binding]; metal-binding site 931281004627 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 931281004628 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 931281004629 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 931281004630 putative active site [active] 931281004631 heme pocket [chemical binding]; other site 931281004632 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 931281004633 Walker A motif; other site 931281004634 ATP binding site [chemical binding]; other site 931281004635 Walker B motif; other site 931281004636 arginine finger; other site 931281004637 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 931281004638 acetyl-CoA synthetase; Provisional; Region: PRK00174 931281004639 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 931281004640 active site 931281004641 CoA binding site [chemical binding]; other site 931281004642 acyl-activating enzyme (AAE) consensus motif; other site 931281004643 AMP binding site [chemical binding]; other site 931281004644 acetate binding site [chemical binding]; other site 931281004645 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 931281004646 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281004647 substrate binding pocket [chemical binding]; other site 931281004648 membrane-bound complex binding site; other site 931281004649 hinge residues; other site 931281004650 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 931281004651 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 931281004652 dimer interface [polypeptide binding]; other site 931281004653 conserved gate region; other site 931281004654 putative PBP binding loops; other site 931281004655 ABC-ATPase subunit interface; other site 931281004656 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 931281004657 dimer interface [polypeptide binding]; other site 931281004658 conserved gate region; other site 931281004659 putative PBP binding loops; other site 931281004660 ABC-ATPase subunit interface; other site 931281004661 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 931281004662 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 931281004663 Walker A/P-loop; other site 931281004664 ATP binding site [chemical binding]; other site 931281004665 Q-loop/lid; other site 931281004666 ABC transporter signature motif; other site 931281004667 Walker B; other site 931281004668 D-loop; other site 931281004669 H-loop/switch region; other site 931281004670 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 931281004671 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 931281004672 conserved cys residue [active] 931281004673 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281004674 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281004675 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 931281004676 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 931281004677 inhibitor-cofactor binding pocket; inhibition site 931281004678 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281004679 catalytic residue [active] 931281004680 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 931281004681 arginine/ornithine succinyltransferase, alpha subunit; Region: arg_AOST_alph; TIGR03245 931281004682 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 931281004683 arginine N-succinyltransferase; Region: arg_catab_AstA; TIGR03244 931281004684 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 931281004685 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 931281004686 NAD(P) binding site [chemical binding]; other site 931281004687 catalytic residues [active] 931281004688 succinylarginine dihydrolase; Provisional; Region: PRK13281 931281004689 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 931281004690 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 931281004691 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 931281004692 putative active site [active] 931281004693 Zn binding site [ion binding]; other site 931281004694 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 931281004695 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 931281004696 motif 1; other site 931281004697 active site 931281004698 motif 2; other site 931281004699 motif 3; other site 931281004700 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 931281004701 DHHA1 domain; Region: DHHA1; pfam02272 931281004702 aspartate kinase; Reviewed; Region: PRK06635 931281004703 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 931281004704 putative nucleotide binding site [chemical binding]; other site 931281004705 putative catalytic residues [active] 931281004706 putative Mg ion binding site [ion binding]; other site 931281004707 putative aspartate binding site [chemical binding]; other site 931281004708 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 931281004709 putative allosteric regulatory site; other site 931281004710 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 931281004711 putative allosteric regulatory residue; other site 931281004712 carbon storage regulator; Provisional; Region: PRK01712 931281004713 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 931281004714 MgtE intracellular N domain; Region: MgtE_N; smart00924 931281004715 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 931281004716 Divalent cation transporter; Region: MgtE; pfam01769 931281004717 Arc-like DNA binding domain; Region: Arc; pfam03869 931281004718 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 931281004719 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 931281004720 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 931281004721 Spore germination protein; Region: Spore_permease; cl17796 931281004722 AAA domain; Region: AAA_32; pfam13654 931281004723 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 931281004724 PAS fold; Region: PAS_3; pfam08447 931281004725 putative active site [active] 931281004726 heme pocket [chemical binding]; other site 931281004727 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 931281004728 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281004729 metal binding site [ion binding]; metal-binding site 931281004730 active site 931281004731 I-site; other site 931281004732 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 931281004733 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 931281004734 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 931281004735 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 931281004736 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 931281004737 E3 interaction surface; other site 931281004738 lipoyl attachment site [posttranslational modification]; other site 931281004739 e3 binding domain; Region: E3_binding; pfam02817 931281004740 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 931281004741 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 931281004742 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 931281004743 alpha subunit interface [polypeptide binding]; other site 931281004744 TPP binding site [chemical binding]; other site 931281004745 heterodimer interface [polypeptide binding]; other site 931281004746 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 931281004747 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 931281004748 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 931281004749 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 931281004750 tetramer interface [polypeptide binding]; other site 931281004751 TPP-binding site [chemical binding]; other site 931281004752 heterodimer interface [polypeptide binding]; other site 931281004753 phosphorylation loop region [posttranslational modification] 931281004754 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 931281004755 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 931281004756 putative DNA binding site [nucleotide binding]; other site 931281004757 putative Zn2+ binding site [ion binding]; other site 931281004758 AsnC family; Region: AsnC_trans_reg; pfam01037 931281004759 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 931281004760 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 931281004761 putative MFS family transporter protein; Provisional; Region: PRK03633 931281004762 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 931281004763 putative substrate translocation pore; other site 931281004764 Flagellar regulator YcgR; Region: YcgR; pfam07317 931281004765 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 931281004766 PilZ domain; Region: PilZ; pfam07238 931281004767 FlgN protein; Region: FlgN; pfam05130 931281004768 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 931281004769 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 931281004770 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 931281004771 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 931281004772 Response regulator receiver domain; Region: Response_reg; pfam00072 931281004773 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281004774 active site 931281004775 phosphorylation site [posttranslational modification] 931281004776 intermolecular recognition site; other site 931281004777 dimerization interface [polypeptide binding]; other site 931281004778 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 931281004779 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 931281004780 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 931281004781 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 931281004782 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 931281004783 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 931281004784 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 931281004785 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 931281004786 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 931281004787 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 931281004788 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 931281004789 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 931281004790 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 931281004791 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 931281004792 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 931281004793 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 931281004794 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 931281004795 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 931281004796 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 931281004797 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 931281004798 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 931281004799 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 931281004800 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 931281004801 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 931281004802 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 931281004803 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 931281004804 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 931281004805 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 931281004806 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 931281004807 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 931281004808 flagellar hook-associated protein FlgL; Provisional; Region: flgL; PRK12717 931281004809 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 931281004810 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 931281004811 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 931281004812 dimer interface [polypeptide binding]; other site 931281004813 active site 931281004814 CoA binding pocket [chemical binding]; other site 931281004815 flagellin; Provisional; Region: PRK12806 931281004816 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 931281004817 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 931281004818 FlaG protein; Region: FlaG; pfam03646 931281004819 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 931281004820 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 931281004821 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 931281004822 flagellar protein FliS; Validated; Region: fliS; PRK05685 931281004823 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 931281004824 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 931281004825 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 931281004826 Walker A motif; other site 931281004827 ATP binding site [chemical binding]; other site 931281004828 Walker B motif; other site 931281004829 arginine finger; other site 931281004830 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 931281004831 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 931281004832 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 931281004833 substrate binding site; other site 931281004834 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 931281004835 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 931281004836 NAD binding site [chemical binding]; other site 931281004837 homotetramer interface [polypeptide binding]; other site 931281004838 homodimer interface [polypeptide binding]; other site 931281004839 substrate binding site [chemical binding]; other site 931281004840 active site 931281004841 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 931281004842 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 931281004843 inhibitor-cofactor binding pocket; inhibition site 931281004844 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281004845 catalytic residue [active] 931281004846 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 931281004847 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 931281004848 active site 931281004849 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 931281004850 FOG: CBS domain [General function prediction only]; Region: COG0517 931281004851 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 931281004852 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 931281004853 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 931281004854 NeuB family; Region: NeuB; pfam03102 931281004855 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 931281004856 NeuB binding interface [polypeptide binding]; other site 931281004857 putative substrate binding site [chemical binding]; other site 931281004858 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 931281004859 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 931281004860 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 931281004861 PYR/PP interface [polypeptide binding]; other site 931281004862 dimer interface [polypeptide binding]; other site 931281004863 TPP binding site [chemical binding]; other site 931281004864 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 931281004865 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 931281004866 TPP-binding site [chemical binding]; other site 931281004867 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 931281004868 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 931281004869 Predicted nucleotidyltransferase; Region: Nuc-transf; cl01417 931281004870 Methyltransferase FkbM domain; Region: Methyltransf_21; cl17387 931281004871 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 931281004872 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 931281004873 NAD(P) binding site [chemical binding]; other site 931281004874 active site 931281004875 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 931281004876 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 931281004877 active site 931281004878 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 931281004879 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 931281004880 active site 931281004881 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 931281004882 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 931281004883 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 931281004884 Transposase; Region: DEDD_Tnp_IS110; pfam01548 931281004885 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 931281004886 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 931281004887 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 931281004888 putative active site [active] 931281004889 heme pocket [chemical binding]; other site 931281004890 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 931281004891 dimer interface [polypeptide binding]; other site 931281004892 phosphorylation site [posttranslational modification] 931281004893 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 931281004894 ATP binding site [chemical binding]; other site 931281004895 Mg2+ binding site [ion binding]; other site 931281004896 G-X-G motif; other site 931281004897 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 931281004898 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281004899 active site 931281004900 phosphorylation site [posttranslational modification] 931281004901 intermolecular recognition site; other site 931281004902 dimerization interface [polypeptide binding]; other site 931281004903 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 931281004904 Walker A motif; other site 931281004905 ATP binding site [chemical binding]; other site 931281004906 Walker B motif; other site 931281004907 arginine finger; other site 931281004908 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 931281004909 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 931281004910 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 931281004911 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 931281004912 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 931281004913 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 931281004914 MgtE intracellular N domain; Region: MgtE_N; cl15244 931281004915 FliG C-terminal domain; Region: FliG_C; pfam01706 931281004916 flagellar assembly protein H; Validated; Region: fliH; PRK05687 931281004917 Flagellar assembly protein FliH; Region: FliH; pfam02108 931281004918 flagellum-specific ATP synthase; Validated; Region: fliI; PRK05688 931281004919 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 931281004920 Walker A motif/ATP binding site; other site 931281004921 Walker B motif; other site 931281004922 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 931281004923 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 931281004924 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 931281004925 anti sigma factor interaction site; other site 931281004926 regulatory phosphorylation site [posttranslational modification]; other site 931281004927 Response regulator receiver domain; Region: Response_reg; pfam00072 931281004928 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281004929 active site 931281004930 phosphorylation site [posttranslational modification] 931281004931 intermolecular recognition site; other site 931281004932 dimerization interface [polypeptide binding]; other site 931281004933 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 931281004934 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 931281004935 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 931281004936 putative binding surface; other site 931281004937 active site 931281004938 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 931281004939 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 931281004940 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 931281004941 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 931281004942 flagellar motor switch protein; Validated; Region: fliN; PRK05698 931281004943 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 931281004944 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 931281004945 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 931281004946 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 931281004947 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 931281004948 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 931281004949 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 931281004950 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 931281004951 FHIPEP family; Region: FHIPEP; pfam00771 931281004952 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 931281004953 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 931281004954 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 931281004955 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 931281004956 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 931281004957 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 931281004958 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 931281004959 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 931281004960 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 931281004961 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 931281004962 DNA binding residues [nucleotide binding] 931281004963 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 931281004964 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281004965 active site 931281004966 phosphorylation site [posttranslational modification] 931281004967 intermolecular recognition site; other site 931281004968 dimerization interface [polypeptide binding]; other site 931281004969 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 931281004970 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 931281004971 putative binding surface; other site 931281004972 active site 931281004973 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 931281004974 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 931281004975 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 931281004976 ATP binding site [chemical binding]; other site 931281004977 Mg2+ binding site [ion binding]; other site 931281004978 G-X-G motif; other site 931281004979 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 931281004980 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 931281004981 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281004982 active site 931281004983 phosphorylation site [posttranslational modification] 931281004984 intermolecular recognition site; other site 931281004985 dimerization interface [polypeptide binding]; other site 931281004986 CheB methylesterase; Region: CheB_methylest; pfam01339 931281004987 flagellar motor protein; Reviewed; Region: motC; PRK09109 931281004988 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 931281004989 flagellar motor protein MotD; Reviewed; Region: PRK09038 931281004990 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 931281004991 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 931281004992 ligand binding site [chemical binding]; other site 931281004993 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 931281004994 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 931281004995 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 931281004996 Magnesium ion binding site [ion binding]; other site 931281004997 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 931281004998 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 931281004999 putative CheA interaction surface; other site 931281005000 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 931281005001 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 931281005002 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 931281005003 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 931281005004 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 931281005005 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 931281005006 Walker A/P-loop; other site 931281005007 ATP binding site [chemical binding]; other site 931281005008 Q-loop/lid; other site 931281005009 ABC transporter signature motif; other site 931281005010 Walker B; other site 931281005011 D-loop; other site 931281005012 H-loop/switch region; other site 931281005013 heme exporter protein CcmB; Region: ccmB; TIGR01190 931281005014 heme exporter protein CcmC; Region: ccmC; TIGR01191 931281005015 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 931281005016 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 931281005017 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 931281005018 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 931281005019 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 931281005020 catalytic residues [active] 931281005021 central insert; other site 931281005022 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 931281005023 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 931281005024 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 931281005025 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 931281005026 binding surface 931281005027 TPR motif; other site 931281005028 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14965 931281005029 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 931281005030 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 931281005031 Uncharacterized conserved protein [Function unknown]; Region: COG3791 931281005032 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 931281005033 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 931281005034 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 931281005035 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 931281005036 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 931281005037 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 931281005038 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 931281005039 Na binding site [ion binding]; other site 931281005040 putative substrate binding site [chemical binding]; other site 931281005041 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 931281005042 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 931281005043 AsnC family; Region: AsnC_trans_reg; pfam01037 931281005044 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 931281005045 EamA-like transporter family; Region: EamA; pfam00892 931281005046 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 931281005047 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 931281005048 S-adenosylmethionine binding site [chemical binding]; other site 931281005049 potential frameshift: common BLAST hit: gi|167034866|ref|YP_001670097.1| mechanosensitive ion channel protein MscS 931281005050 potential frameshift: common BLAST hit: gi|167034866|ref|YP_001670097.1| mechanosensitive ion channel protein MscS 931281005051 Mechanosensitive ion channel; Region: MS_channel; pfam00924 931281005052 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 931281005053 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 931281005054 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 931281005055 putative substrate translocation pore; other site 931281005056 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 931281005057 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 931281005058 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 931281005059 Ion transport protein; Region: Ion_trans; pfam00520 931281005060 Ion channel; Region: Ion_trans_2; pfam07885 931281005061 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 931281005062 Urea transporter; Region: UT; pfam03253 931281005063 pyruvate kinase; Provisional; Region: PRK06247 931281005064 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 931281005065 domain interfaces; other site 931281005066 active site 931281005067 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 931281005068 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 931281005069 MOFRL family; Region: MOFRL; pfam05161 931281005070 tartronate semialdehyde reductase; Provisional; Region: PRK15059 931281005071 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 931281005072 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 931281005073 glyoxylate carboligase; Provisional; Region: PRK11269 931281005074 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 931281005075 PYR/PP interface [polypeptide binding]; other site 931281005076 dimer interface [polypeptide binding]; other site 931281005077 TPP binding site [chemical binding]; other site 931281005078 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 931281005079 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 931281005080 TPP-binding site [chemical binding]; other site 931281005081 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 931281005082 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 931281005083 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 931281005084 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 931281005085 Protein of unknown function (DUF808); Region: DUF808; pfam05661 931281005086 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 931281005087 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 931281005088 xanthine permease; Region: pbuX; TIGR03173 931281005089 Predicted membrane protein [Function unknown]; Region: COG3748 931281005090 Protein of unknown function (DUF989); Region: DUF989; pfam06181 931281005091 Cytochrome c; Region: Cytochrom_C; pfam00034 931281005092 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 931281005093 ureidoglycolate hydrolase; Provisional; Region: PRK03606 931281005094 OHCU decarboxylase; Region: UHCUDC; TIGR03164 931281005095 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 931281005096 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 931281005097 active site 931281005098 catalytic site [active] 931281005099 tetramer interface [polypeptide binding]; other site 931281005100 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 931281005101 active site 931281005102 homotetramer interface [polypeptide binding]; other site 931281005103 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 931281005104 Transcriptional regulators [Transcription]; Region: GntR; COG1802 931281005105 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281005106 DNA-binding site [nucleotide binding]; DNA binding site 931281005107 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 931281005108 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 931281005109 amphipathic channel; other site 931281005110 Asn-Pro-Ala signature motifs; other site 931281005111 guanine deaminase; Provisional; Region: PRK09228 931281005112 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 931281005113 active site 931281005114 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 931281005115 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 931281005116 XdhC Rossmann domain; Region: XdhC_C; pfam13478 931281005117 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 931281005118 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 931281005119 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 931281005120 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 931281005121 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 931281005122 catalytic loop [active] 931281005123 iron binding site [ion binding]; other site 931281005124 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 931281005125 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 931281005126 Transcriptional regulators [Transcription]; Region: GntR; COG1802 931281005127 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281005128 DNA-binding site [nucleotide binding]; DNA binding site 931281005129 FCD domain; Region: FCD; cl11656 931281005130 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 931281005131 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 931281005132 Walker A/P-loop; other site 931281005133 ATP binding site [chemical binding]; other site 931281005134 Q-loop/lid; other site 931281005135 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 931281005136 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 931281005137 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 931281005138 ABC transporter signature motif; other site 931281005139 Walker B; other site 931281005140 D-loop; other site 931281005141 H-loop/switch region; other site 931281005142 cell division protein ZipA; Reviewed; Region: zipA; PRK00269 931281005143 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 931281005144 FtsZ protein binding site [polypeptide binding]; other site 931281005145 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 931281005146 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 931281005147 nucleotide binding pocket [chemical binding]; other site 931281005148 K-X-D-G motif; other site 931281005149 catalytic site [active] 931281005150 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 931281005151 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 931281005152 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 931281005153 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 931281005154 Dimer interface [polypeptide binding]; other site 931281005155 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 931281005156 Major Facilitator Superfamily; Region: MFS_1; pfam07690 931281005157 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 931281005158 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 931281005159 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281005160 substrate binding pocket [chemical binding]; other site 931281005161 membrane-bound complex binding site; other site 931281005162 hinge residues; other site 931281005163 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 931281005164 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 931281005165 Walker A motif; other site 931281005166 ATP binding site [chemical binding]; other site 931281005167 Walker B motif; other site 931281005168 arginine finger; other site 931281005169 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 931281005170 hypothetical protein; Validated; Region: PRK00153 931281005171 recombination protein RecR; Reviewed; Region: recR; PRK00076 931281005172 RecR protein; Region: RecR; pfam02132 931281005173 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 931281005174 putative active site [active] 931281005175 putative metal-binding site [ion binding]; other site 931281005176 tetramer interface [polypeptide binding]; other site 931281005177 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 931281005178 active site 931281005179 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 931281005180 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 931281005181 ligand binding site [chemical binding]; other site 931281005182 flexible hinge region; other site 931281005183 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 931281005184 putative switch regulator; other site 931281005185 non-specific DNA interactions [nucleotide binding]; other site 931281005186 DNA binding site [nucleotide binding] 931281005187 sequence specific DNA binding site [nucleotide binding]; other site 931281005188 putative cAMP binding site [chemical binding]; other site 931281005189 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 931281005190 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 931281005191 FeS/SAM binding site; other site 931281005192 HemN C-terminal domain; Region: HemN_C; pfam06969 931281005193 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 931281005194 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 931281005195 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 931281005196 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 931281005197 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 931281005198 metal-binding site [ion binding] 931281005199 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 931281005200 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 931281005201 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 931281005202 FixH; Region: FixH; pfam05751 931281005203 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 931281005204 4Fe-4S binding domain; Region: Fer4_5; pfam12801 931281005205 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 931281005206 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 931281005207 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 931281005208 Cytochrome c; Region: Cytochrom_C; pfam00034 931281005209 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 931281005210 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 931281005211 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 931281005212 potential frameshift: common BLAST hit: gi|148546851|ref|YP_001266953.1| cbb3-type cytochrome c oxidase subunit I 931281005213 cbb3-type cytochrome c oxidase subunit I; Provisional; Region: PRK14488 931281005214 Putative water exit pathway; other site 931281005215 Binuclear center (active site) [active] 931281005216 K-pathway; other site 931281005217 Putative proton exit pathway; other site 931281005218 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 931281005219 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 931281005220 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 931281005221 Cytochrome c; Region: Cytochrom_C; pfam00034 931281005222 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 931281005223 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 931281005224 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 931281005225 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 931281005226 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 931281005227 Low-spin heme binding site [chemical binding]; other site 931281005228 Putative water exit pathway; other site 931281005229 Binuclear center (active site) [active] 931281005230 Putative proton exit pathway; other site 931281005231 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 931281005232 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 931281005233 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 931281005234 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 931281005235 active site 931281005236 catalytic site [active] 931281005237 substrate binding site [chemical binding]; other site 931281005238 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 931281005239 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281005240 substrate binding pocket [chemical binding]; other site 931281005241 membrane-bound complex binding site; other site 931281005242 hinge residues; other site 931281005243 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 931281005244 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 931281005245 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 931281005246 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 931281005247 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 931281005248 DNA binding residues [nucleotide binding] 931281005249 peptide synthase; Validated; Region: PRK05691 931281005250 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 931281005251 acyl-activating enzyme (AAE) consensus motif; other site 931281005252 active site 931281005253 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 931281005254 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 931281005255 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 931281005256 acyl-activating enzyme (AAE) consensus motif; other site 931281005257 AMP binding site [chemical binding]; other site 931281005258 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 931281005259 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 931281005260 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 931281005261 acyl-activating enzyme (AAE) consensus motif; other site 931281005262 AMP binding site [chemical binding]; other site 931281005263 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 931281005264 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 931281005265 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 931281005266 acyl-activating enzyme (AAE) consensus motif; other site 931281005267 AMP binding site [chemical binding]; other site 931281005268 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 931281005269 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281005270 H-loop/switch region; other site 931281005271 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 931281005272 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 931281005273 dimerization domain [polypeptide binding]; other site 931281005274 dimer interface [polypeptide binding]; other site 931281005275 catalytic residues [active] 931281005276 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 931281005277 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 931281005278 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 931281005279 catalytic residues [active] 931281005280 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 931281005281 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 931281005282 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 931281005283 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 931281005284 DsbD alpha interface [polypeptide binding]; other site 931281005285 catalytic residues [active] 931281005286 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 931281005287 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 931281005288 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 931281005289 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 931281005290 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 931281005291 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 931281005292 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 931281005293 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 931281005294 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 931281005295 Cytochrome c; Region: Cytochrom_C; pfam00034 931281005296 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 931281005297 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 931281005298 XdhC Rossmann domain; Region: XdhC_C; pfam13478 931281005299 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 931281005300 Ligand binding site; other site 931281005301 metal-binding site 931281005302 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 931281005303 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281005304 active site 931281005305 phosphorylation site [posttranslational modification] 931281005306 intermolecular recognition site; other site 931281005307 dimerization interface [polypeptide binding]; other site 931281005308 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 931281005309 DNA binding site [nucleotide binding] 931281005310 sensor protein QseC; Provisional; Region: PRK10337 931281005311 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 931281005312 dimer interface [polypeptide binding]; other site 931281005313 phosphorylation site [posttranslational modification] 931281005314 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 931281005315 ATP binding site [chemical binding]; other site 931281005316 G-X-G motif; other site 931281005317 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 931281005318 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 931281005319 inhibitor-cofactor binding pocket; inhibition site 931281005320 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281005321 catalytic residue [active] 931281005322 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 931281005323 Condensation domain; Region: Condensation; pfam00668 931281005324 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 931281005325 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 931281005326 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 931281005327 acyl-activating enzyme (AAE) consensus motif; other site 931281005328 AMP binding site [chemical binding]; other site 931281005329 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 931281005330 Condensation domain; Region: Condensation; pfam00668 931281005331 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 931281005332 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 931281005333 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 931281005334 acyl-activating enzyme (AAE) consensus motif; other site 931281005335 AMP binding site [chemical binding]; other site 931281005336 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 931281005337 Condensation domain; Region: Condensation; pfam00668 931281005338 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 931281005339 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 931281005340 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 931281005341 acyl-activating enzyme (AAE) consensus motif; other site 931281005342 AMP binding site [chemical binding]; other site 931281005343 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 931281005344 Condensation domain; Region: Condensation; pfam00668 931281005345 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 931281005346 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 931281005347 Condensation domain; Region: Condensation; pfam00668 931281005348 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 931281005349 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 931281005350 acyl-activating enzyme (AAE) consensus motif; other site 931281005351 AMP binding site [chemical binding]; other site 931281005352 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 931281005353 Condensation domain; Region: Condensation; pfam00668 931281005354 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 931281005355 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 931281005356 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 931281005357 acyl-activating enzyme (AAE) consensus motif; other site 931281005358 AMP binding site [chemical binding]; other site 931281005359 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 931281005360 Condensation domain; Region: Condensation; pfam00668 931281005361 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 931281005362 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 931281005363 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 931281005364 acyl-activating enzyme (AAE) consensus motif; other site 931281005365 AMP binding site [chemical binding]; other site 931281005366 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 931281005367 Condensation domain; Region: Condensation; pfam00668 931281005368 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 931281005369 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 931281005370 acyl-activating enzyme (AAE) consensus motif; other site 931281005371 AMP binding site [chemical binding]; other site 931281005372 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 931281005373 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 931281005374 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 931281005375 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 931281005376 Secretin and TonB N terminus short domain; Region: STN; smart00965 931281005377 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 931281005378 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 931281005379 N-terminal plug; other site 931281005380 ligand-binding site [chemical binding]; other site 931281005381 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 931281005382 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 931281005383 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 931281005384 Walker A/P-loop; other site 931281005385 ATP binding site [chemical binding]; other site 931281005386 Q-loop/lid; other site 931281005387 ABC transporter signature motif; other site 931281005388 Walker B; other site 931281005389 D-loop; other site 931281005390 H-loop/switch region; other site 931281005391 Uncharacterized conserved protein [Function unknown]; Region: COG1262 931281005392 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 931281005393 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 931281005394 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 931281005395 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 931281005396 catalytic residue [active] 931281005397 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 931281005398 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 931281005399 active site 931281005400 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 931281005401 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 931281005402 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 931281005403 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 931281005404 Walker A/P-loop; other site 931281005405 ATP binding site [chemical binding]; other site 931281005406 Q-loop/lid; other site 931281005407 ABC transporter signature motif; other site 931281005408 Walker B; other site 931281005409 D-loop; other site 931281005410 H-loop/switch region; other site 931281005411 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 931281005412 FtsX-like permease family; Region: FtsX; pfam02687 931281005413 macrolide transporter subunit MacA; Provisional; Region: PRK11578 931281005414 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 931281005415 HlyD family secretion protein; Region: HlyD_3; pfam13437 931281005416 RNA polymerase sigma factor; Reviewed; Region: PRK12527 931281005417 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 931281005418 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 931281005419 DNA binding residues [nucleotide binding] 931281005420 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 931281005421 metabolite-proton symporter; Region: 2A0106; TIGR00883 931281005422 Motility quorum-sensing regulator (MqsR); Region: MqsR; cd12869 931281005423 peptide binding site [polypeptide binding]; other site 931281005424 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 931281005425 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 931281005426 toxin interface [polypeptide binding]; other site 931281005427 Zn binding site [ion binding]; other site 931281005428 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 931281005429 non-specific DNA binding site [nucleotide binding]; other site 931281005430 salt bridge; other site 931281005431 sequence-specific DNA binding site [nucleotide binding]; other site 931281005432 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 931281005433 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 931281005434 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 931281005435 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 931281005436 Ligand binding site [chemical binding]; other site 931281005437 Electron transfer flavoprotein domain; Region: ETF; pfam01012 931281005438 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 931281005439 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 931281005440 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 931281005441 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281005442 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 931281005443 substrate binding pocket [chemical binding]; other site 931281005444 membrane-bound complex binding site; other site 931281005445 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 931281005446 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 931281005447 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 931281005448 ligand binding site [chemical binding]; other site 931281005449 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 931281005450 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281005451 DNA-binding site [nucleotide binding]; DNA binding site 931281005452 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 931281005453 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281005454 homodimer interface [polypeptide binding]; other site 931281005455 catalytic residue [active] 931281005456 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 931281005457 putative lipid binding site [chemical binding]; other site 931281005458 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 931281005459 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 931281005460 dimer interface [polypeptide binding]; other site 931281005461 active site 931281005462 citrylCoA binding site [chemical binding]; other site 931281005463 NADH binding [chemical binding]; other site 931281005464 cationic pore residues; other site 931281005465 oxalacetate/citrate binding site [chemical binding]; other site 931281005466 coenzyme A binding site [chemical binding]; other site 931281005467 catalytic triad [active] 931281005468 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 931281005469 Iron-sulfur protein interface; other site 931281005470 proximal quinone binding site [chemical binding]; other site 931281005471 SdhD (CybS) interface [polypeptide binding]; other site 931281005472 proximal heme binding site [chemical binding]; other site 931281005473 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 931281005474 SdhC subunit interface [polypeptide binding]; other site 931281005475 proximal heme binding site [chemical binding]; other site 931281005476 cardiolipin binding site; other site 931281005477 Iron-sulfur protein interface; other site 931281005478 proximal quinone binding site [chemical binding]; other site 931281005479 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 931281005480 L-aspartate oxidase; Provisional; Region: PRK06175 931281005481 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 931281005482 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 931281005483 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 931281005484 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 931281005485 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 931281005486 TPP-binding site [chemical binding]; other site 931281005487 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 931281005488 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 931281005489 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 931281005490 E3 interaction surface; other site 931281005491 lipoyl attachment site [posttranslational modification]; other site 931281005492 e3 binding domain; Region: E3_binding; pfam02817 931281005493 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 931281005494 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 931281005495 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 931281005496 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 931281005497 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 931281005498 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 931281005499 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 931281005500 CoA-ligase; Region: Ligase_CoA; pfam00549 931281005501 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 931281005502 CoA binding domain; Region: CoA_binding; pfam02629 931281005503 CoA-ligase; Region: Ligase_CoA; pfam00549 931281005504 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 931281005505 Predicted membrane protein [Function unknown]; Region: COG3821 931281005506 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 931281005507 CoenzymeA binding site [chemical binding]; other site 931281005508 subunit interaction site [polypeptide binding]; other site 931281005509 PHB binding site; other site 931281005510 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 931281005511 CoenzymeA binding site [chemical binding]; other site 931281005512 subunit interaction site [polypeptide binding]; other site 931281005513 PHB binding site; other site 931281005514 heat shock protein 90; Provisional; Region: PRK05218 931281005515 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 931281005516 ATP binding site [chemical binding]; other site 931281005517 Mg2+ binding site [ion binding]; other site 931281005518 G-X-G motif; other site 931281005519 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 931281005520 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 931281005521 Pirin-related protein [General function prediction only]; Region: COG1741 931281005522 Pirin; Region: Pirin; pfam02678 931281005523 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 931281005524 Amidohydrolase; Region: Amidohydro_2; pfam04909 931281005525 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 931281005526 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 931281005527 dimer interface [polypeptide binding]; other site 931281005528 active site 931281005529 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 931281005530 active site 1 [active] 931281005531 dimer interface [polypeptide binding]; other site 931281005532 active site 2 [active] 931281005533 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 931281005534 dimerization interface [polypeptide binding]; other site 931281005535 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 931281005536 dimer interface [polypeptide binding]; other site 931281005537 phosphorylation site [posttranslational modification] 931281005538 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 931281005539 ATP binding site [chemical binding]; other site 931281005540 Mg2+ binding site [ion binding]; other site 931281005541 G-X-G motif; other site 931281005542 Response regulator receiver domain; Region: Response_reg; pfam00072 931281005543 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281005544 active site 931281005545 phosphorylation site [posttranslational modification] 931281005546 intermolecular recognition site; other site 931281005547 dimerization interface [polypeptide binding]; other site 931281005548 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 931281005549 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 931281005550 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 931281005551 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 931281005552 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 931281005553 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 931281005554 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 931281005555 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 931281005556 catalytic core [active] 931281005557 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 931281005558 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 931281005559 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 931281005560 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 931281005561 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 931281005562 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 931281005563 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 931281005564 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 931281005565 Soluble P-type ATPase [General function prediction only]; Region: COG4087 931281005566 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 931281005567 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 931281005568 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 931281005569 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 931281005570 Ligand Binding Site [chemical binding]; other site 931281005571 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 931281005572 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 931281005573 dimer interface [polypeptide binding]; other site 931281005574 phosphorylation site [posttranslational modification] 931281005575 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 931281005576 ATP binding site [chemical binding]; other site 931281005577 Mg2+ binding site [ion binding]; other site 931281005578 G-X-G motif; other site 931281005579 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 931281005580 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281005581 active site 931281005582 phosphorylation site [posttranslational modification] 931281005583 intermolecular recognition site; other site 931281005584 dimerization interface [polypeptide binding]; other site 931281005585 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 931281005586 DNA binding site [nucleotide binding] 931281005587 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281005588 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281005589 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 931281005590 dimerization interface [polypeptide binding]; other site 931281005591 hypothetical protein; Provisional; Region: PRK06149 931281005592 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 931281005593 active site 931281005594 ATP binding site [chemical binding]; other site 931281005595 substrate binding site [chemical binding]; other site 931281005596 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 931281005597 inhibitor-cofactor binding pocket; inhibition site 931281005598 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281005599 catalytic residue [active] 931281005600 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 931281005601 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 931281005602 N-terminal plug; other site 931281005603 ligand-binding site [chemical binding]; other site 931281005604 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 931281005605 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 931281005606 Walker A/P-loop; other site 931281005607 ATP binding site [chemical binding]; other site 931281005608 Q-loop/lid; other site 931281005609 ABC transporter signature motif; other site 931281005610 Walker B; other site 931281005611 D-loop; other site 931281005612 H-loop/switch region; other site 931281005613 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 931281005614 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 931281005615 Walker A/P-loop; other site 931281005616 ATP binding site [chemical binding]; other site 931281005617 Q-loop/lid; other site 931281005618 ABC transporter signature motif; other site 931281005619 Walker B; other site 931281005620 D-loop; other site 931281005621 H-loop/switch region; other site 931281005622 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 931281005623 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 931281005624 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 931281005625 dimer interface [polypeptide binding]; other site 931281005626 conserved gate region; other site 931281005627 putative PBP binding loops; other site 931281005628 ABC-ATPase subunit interface; other site 931281005629 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 931281005630 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 931281005631 dimer interface [polypeptide binding]; other site 931281005632 conserved gate region; other site 931281005633 putative PBP binding loops; other site 931281005634 ABC-ATPase subunit interface; other site 931281005635 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 931281005636 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 931281005637 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 931281005638 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 931281005639 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 931281005640 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 931281005641 N-acetyl-D-glucosamine binding site [chemical binding]; other site 931281005642 catalytic residue [active] 931281005643 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 931281005644 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 931281005645 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 931281005646 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 931281005647 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 931281005648 RNA/DNA hybrid binding site [nucleotide binding]; other site 931281005649 active site 931281005650 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 931281005651 active site 931281005652 catalytic site [active] 931281005653 substrate binding site [chemical binding]; other site 931281005654 arginine decarboxylase; Provisional; Region: PRK15029 931281005655 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 931281005656 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 931281005657 homodimer interface [polypeptide binding]; other site 931281005658 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281005659 catalytic residue [active] 931281005660 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 931281005661 Predicted flavoprotein [General function prediction only]; Region: COG0431 931281005662 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 931281005663 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 931281005664 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 931281005665 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 931281005666 DNA binding residues [nucleotide binding] 931281005667 dimerization interface [polypeptide binding]; other site 931281005668 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 931281005669 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 931281005670 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 931281005671 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 931281005672 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 931281005673 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 931281005674 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 931281005675 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 931281005676 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 931281005677 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 931281005678 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 931281005679 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 931281005680 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 931281005681 4Fe-4S binding domain; Region: Fer4; pfam00037 931281005682 4Fe-4S binding domain; Region: Fer4; pfam00037 931281005683 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 931281005684 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 931281005685 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 931281005686 catalytic loop [active] 931281005687 iron binding site [ion binding]; other site 931281005688 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 931281005689 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 931281005690 [4Fe-4S] binding site [ion binding]; other site 931281005691 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 931281005692 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 931281005693 SLBB domain; Region: SLBB; pfam10531 931281005694 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 931281005695 NADH dehydrogenase subunit E; Validated; Region: PRK07539 931281005696 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 931281005697 putative dimer interface [polypeptide binding]; other site 931281005698 [2Fe-2S] cluster binding site [ion binding]; other site 931281005699 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 931281005700 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 931281005701 NADH dehydrogenase subunit D; Validated; Region: PRK06075 931281005702 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 931281005703 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 931281005704 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 931281005705 isocitrate lyase; Provisional; Region: PRK15063 931281005706 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 931281005707 tetramer interface [polypeptide binding]; other site 931281005708 active site 931281005709 Mg2+/Mn2+ binding site [ion binding]; other site 931281005710 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 931281005711 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 931281005712 RNA polymerase Rpc34 subunit; Region: RNA_pol_Rpc34; cl02127 931281005713 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 931281005714 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 931281005715 active site 931281005716 catalytic residues [active] 931281005717 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 931281005718 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 931281005719 Sulfate transporter family; Region: Sulfate_transp; pfam00916 931281005720 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 931281005721 elongation factor G; Reviewed; Region: PRK00007 931281005722 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 931281005723 G1 box; other site 931281005724 putative GEF interaction site [polypeptide binding]; other site 931281005725 GTP/Mg2+ binding site [chemical binding]; other site 931281005726 Switch I region; other site 931281005727 G2 box; other site 931281005728 G3 box; other site 931281005729 Switch II region; other site 931281005730 G4 box; other site 931281005731 G5 box; other site 931281005732 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 931281005733 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 931281005734 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 931281005735 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 931281005736 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 931281005737 inhibitor-cofactor binding pocket; inhibition site 931281005738 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281005739 catalytic residue [active] 931281005740 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 931281005741 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281005742 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 931281005743 dimerization interface [polypeptide binding]; other site 931281005744 substrate binding pocket [chemical binding]; other site 931281005745 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 931281005746 Spore germination protein; Region: Spore_permease; cl17796 931281005747 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 931281005748 CoenzymeA binding site [chemical binding]; other site 931281005749 subunit interaction site [polypeptide binding]; other site 931281005750 PHB binding site; other site 931281005751 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 931281005752 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 931281005753 C-terminal domain interface [polypeptide binding]; other site 931281005754 GSH binding site (G-site) [chemical binding]; other site 931281005755 dimer interface [polypeptide binding]; other site 931281005756 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 931281005757 dimer interface [polypeptide binding]; other site 931281005758 N-terminal domain interface [polypeptide binding]; other site 931281005759 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 931281005760 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 931281005761 Uncharacterized conserved protein [Function unknown]; Region: COG3189 931281005762 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 931281005763 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 931281005764 Coenzyme A binding pocket [chemical binding]; other site 931281005765 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 931281005766 sequence-specific DNA binding site [nucleotide binding]; other site 931281005767 salt bridge; other site 931281005768 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 931281005769 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281005770 active site 931281005771 phosphorylation site [posttranslational modification] 931281005772 intermolecular recognition site; other site 931281005773 dimerization interface [polypeptide binding]; other site 931281005774 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 931281005775 DNA binding residues [nucleotide binding] 931281005776 dimerization interface [polypeptide binding]; other site 931281005777 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 931281005778 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 931281005779 GIY-YIG motif/motif A; other site 931281005780 active site 931281005781 catalytic site [active] 931281005782 putative DNA binding site [nucleotide binding]; other site 931281005783 metal binding site [ion binding]; metal-binding site 931281005784 UvrB/uvrC motif; Region: UVR; pfam02151 931281005785 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 931281005786 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 931281005787 DNA binding site [nucleotide binding] 931281005788 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 931281005789 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 931281005790 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 931281005791 non-specific DNA binding site [nucleotide binding]; other site 931281005792 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 931281005793 salt bridge; other site 931281005794 sequence-specific DNA binding site [nucleotide binding]; other site 931281005795 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 931281005796 Catalytic site [active] 931281005797 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 931281005798 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 931281005799 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 931281005800 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 931281005801 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 931281005802 carboxyltransferase (CT) interaction site; other site 931281005803 biotinylation site [posttranslational modification]; other site 931281005804 gamma-carboxygeranoyl-CoA hydratase; Validated; Region: PRK05674 931281005805 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 931281005806 substrate binding site [chemical binding]; other site 931281005807 oxyanion hole (OAH) forming residues; other site 931281005808 trimer interface [polypeptide binding]; other site 931281005809 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 931281005810 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 931281005811 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 931281005812 isovaleryl-CoA dehydrogenase; Region: PLN02519 931281005813 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 931281005814 substrate binding site [chemical binding]; other site 931281005815 FAD binding site [chemical binding]; other site 931281005816 catalytic base [active] 931281005817 AMP-binding domain protein; Validated; Region: PRK08315 931281005818 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 931281005819 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 931281005820 acyl-activating enzyme (AAE) consensus motif; other site 931281005821 putative AMP binding site [chemical binding]; other site 931281005822 putative active site [active] 931281005823 putative CoA binding site [chemical binding]; other site 931281005824 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 931281005825 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 931281005826 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 931281005827 active site 931281005828 homodimer interface [polypeptide binding]; other site 931281005829 catalytic site [active] 931281005830 acceptor binding site [chemical binding]; other site 931281005831 trehalose synthase; Region: treS_nterm; TIGR02456 931281005832 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 931281005833 active site 931281005834 catalytic site [active] 931281005835 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 931281005836 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 931281005837 glycogen branching enzyme; Provisional; Region: PRK05402 931281005838 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 931281005839 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 931281005840 active site 931281005841 catalytic site [active] 931281005842 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 931281005843 Autotransporter beta-domain; Region: Autotransporter; pfam03797 931281005844 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 931281005845 putative catalytic site [active] 931281005846 putative metal binding site [ion binding]; other site 931281005847 putative phosphate binding site [ion binding]; other site 931281005848 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 931281005849 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 931281005850 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 931281005851 active site 931281005852 catalytic site [active] 931281005853 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 931281005854 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 931281005855 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 931281005856 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 931281005857 active site 931281005858 catalytic site [active] 931281005859 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 931281005860 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 931281005861 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 931281005862 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 931281005863 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 931281005864 catalytic site [active] 931281005865 active site 931281005866 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 931281005867 glycogen synthase; Provisional; Region: glgA; PRK00654 931281005868 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 931281005869 ADP-binding pocket [chemical binding]; other site 931281005870 homodimer interface [polypeptide binding]; other site 931281005871 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 931281005872 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 931281005873 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 931281005874 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 931281005875 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 931281005876 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 931281005877 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 931281005878 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 931281005879 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 931281005880 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 931281005881 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 931281005882 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 931281005883 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 931281005884 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 931281005885 homodimer interface [polypeptide binding]; other site 931281005886 active site 931281005887 FMN binding site [chemical binding]; other site 931281005888 substrate binding site [chemical binding]; other site 931281005889 4Fe-4S binding domain; Region: Fer4_6; pfam12837 931281005890 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 931281005891 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 931281005892 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 931281005893 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 931281005894 phenylhydantoinase; Validated; Region: PRK08323 931281005895 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 931281005896 tetramer interface [polypeptide binding]; other site 931281005897 active site 931281005898 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 931281005899 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 931281005900 Na binding site [ion binding]; other site 931281005901 putative substrate binding site [chemical binding]; other site 931281005902 allantoate amidohydrolase; Reviewed; Region: PRK12893 931281005903 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 931281005904 active site 931281005905 metal binding site [ion binding]; metal-binding site 931281005906 dimer interface [polypeptide binding]; other site 931281005907 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 931281005908 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 931281005909 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 931281005910 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 931281005911 enoyl-CoA hydratase; Provisional; Region: PRK06142 931281005912 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 931281005913 substrate binding site [chemical binding]; other site 931281005914 oxyanion hole (OAH) forming residues; other site 931281005915 trimer interface [polypeptide binding]; other site 931281005916 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 931281005917 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 931281005918 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 931281005919 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 931281005920 putative NADH binding site [chemical binding]; other site 931281005921 putative active site [active] 931281005922 nudix motif; other site 931281005923 putative metal binding site [ion binding]; other site 931281005924 hypothetical protein; Provisional; Region: PRK10621 931281005925 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 931281005926 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 931281005927 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 931281005928 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 931281005929 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 931281005930 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 931281005931 DNA topoisomerase III; Provisional; Region: PRK07726 931281005932 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 931281005933 active site 931281005934 putative interdomain interaction site [polypeptide binding]; other site 931281005935 putative metal-binding site [ion binding]; other site 931281005936 putative nucleotide binding site [chemical binding]; other site 931281005937 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 931281005938 domain I; other site 931281005939 DNA binding groove [nucleotide binding] 931281005940 phosphate binding site [ion binding]; other site 931281005941 domain II; other site 931281005942 domain III; other site 931281005943 nucleotide binding site [chemical binding]; other site 931281005944 catalytic site [active] 931281005945 domain IV; other site 931281005946 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 931281005947 Coenzyme A binding pocket [chemical binding]; other site 931281005948 Uncharacterized conserved protein [Function unknown]; Region: COG2850 931281005949 Cupin domain; Region: Cupin_2; cl17218 931281005950 adenylosuccinate lyase; Provisional; Region: PRK09285 931281005951 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 931281005952 tetramer interface [polypeptide binding]; other site 931281005953 active site 931281005954 putative lysogenization regulator; Reviewed; Region: PRK00218 931281005955 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 931281005956 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 931281005957 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 931281005958 nudix motif; other site 931281005959 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 931281005960 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 931281005961 isocitrate dehydrogenase; Validated; Region: PRK07362 931281005962 isocitrate dehydrogenase; Reviewed; Region: PRK07006 931281005963 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 931281005964 DNA-binding site [nucleotide binding]; DNA binding site 931281005965 RNA-binding motif; other site 931281005966 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 931281005967 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 931281005968 Clp amino terminal domain; Region: Clp_N; pfam02861 931281005969 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 931281005970 Walker A motif; other site 931281005971 ATP binding site [chemical binding]; other site 931281005972 Walker B motif; other site 931281005973 arginine finger; other site 931281005974 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 931281005975 Walker A motif; other site 931281005976 ATP binding site [chemical binding]; other site 931281005977 Walker B motif; other site 931281005978 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 931281005979 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 931281005980 rRNA binding site [nucleotide binding]; other site 931281005981 predicted 30S ribosome binding site; other site 931281005982 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 931281005983 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 931281005984 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 931281005985 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 931281005986 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 931281005987 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 931281005988 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 931281005989 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 931281005990 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 931281005991 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 931281005992 recombination factor protein RarA; Reviewed; Region: PRK13342 931281005993 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 931281005994 Walker A motif; other site 931281005995 ATP binding site [chemical binding]; other site 931281005996 Walker B motif; other site 931281005997 arginine finger; other site 931281005998 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 931281005999 camphor resistance protein CrcB; Provisional; Region: PRK14234 931281006000 seryl-tRNA synthetase; Provisional; Region: PRK05431 931281006001 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 931281006002 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 931281006003 dimer interface [polypeptide binding]; other site 931281006004 active site 931281006005 motif 1; other site 931281006006 motif 2; other site 931281006007 motif 3; other site 931281006008 siroheme synthase; Provisional; Region: cysG; PRK10637 931281006009 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 931281006010 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 931281006011 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 931281006012 active site 931281006013 SAM binding site [chemical binding]; other site 931281006014 homodimer interface [polypeptide binding]; other site 931281006015 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 931281006016 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 931281006017 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 931281006018 putative dimer interface [polypeptide binding]; other site 931281006019 N-terminal domain interface [polypeptide binding]; other site 931281006020 putative substrate binding pocket (H-site) [chemical binding]; other site 931281006021 hypothetical protein; Validated; Region: PRK09071 931281006022 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 931281006023 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 931281006024 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 931281006025 DsrH like protein; Region: DsrH; cl17347 931281006026 sulfur relay protein TusC; Validated; Region: PRK00211 931281006027 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 931281006028 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 931281006029 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 931281006030 YccA-like proteins; Region: YccA_like; cd10433 931281006031 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 931281006032 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 931281006033 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 931281006034 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 931281006035 putative NAD(P) binding site [chemical binding]; other site 931281006036 active site 931281006037 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 931281006038 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 931281006039 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 931281006040 NAD binding site [chemical binding]; other site 931281006041 catalytic Zn binding site [ion binding]; other site 931281006042 structural Zn binding site [ion binding]; other site 931281006043 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 931281006044 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 931281006045 dimer interface [polypeptide binding]; other site 931281006046 phosphorylation site [posttranslational modification] 931281006047 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 931281006048 ATP binding site [chemical binding]; other site 931281006049 Mg2+ binding site [ion binding]; other site 931281006050 G-X-G motif; other site 931281006051 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 931281006052 Protein of unknown function (DUF1264); Region: DUF1264; pfam06884 931281006053 Major Facilitator Superfamily; Region: MFS_1; pfam07690 931281006054 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 931281006055 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 931281006056 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 931281006057 BCCT family transporter; Region: BCCT; cl00569 931281006058 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 931281006059 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 931281006060 DctM-like transporters; Region: DctM; pfam06808 931281006061 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 931281006062 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 931281006063 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 931281006064 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 931281006065 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 931281006066 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 931281006067 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 931281006068 dimer interface [polypeptide binding]; other site 931281006069 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 931281006070 putative CheW interface [polypeptide binding]; other site 931281006071 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 931281006072 NADH(P)-binding; Region: NAD_binding_10; pfam13460 931281006073 extended (e) SDRs; Region: SDR_e; cd08946 931281006074 NAD(P) binding site [chemical binding]; other site 931281006075 active site 931281006076 substrate binding site [chemical binding]; other site 931281006077 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 931281006078 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 931281006079 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 4. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_4; cd03329 931281006080 putative active site pocket [active] 931281006081 metal binding site [ion binding]; metal-binding site 931281006082 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 931281006083 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 931281006084 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 931281006085 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 931281006086 dimer interface [polypeptide binding]; other site 931281006087 conserved gate region; other site 931281006088 putative PBP binding loops; other site 931281006089 ABC-ATPase subunit interface; other site 931281006090 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 931281006091 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 931281006092 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 931281006093 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 931281006094 dimer interface [polypeptide binding]; other site 931281006095 conserved gate region; other site 931281006096 ABC-ATPase subunit interface; other site 931281006097 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 931281006098 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 931281006099 Walker A/P-loop; other site 931281006100 ATP binding site [chemical binding]; other site 931281006101 Q-loop/lid; other site 931281006102 ABC transporter signature motif; other site 931281006103 Walker B; other site 931281006104 D-loop; other site 931281006105 H-loop/switch region; other site 931281006106 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 931281006107 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 931281006108 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 931281006109 Walker A/P-loop; other site 931281006110 ATP binding site [chemical binding]; other site 931281006111 Q-loop/lid; other site 931281006112 ABC transporter signature motif; other site 931281006113 Walker B; other site 931281006114 D-loop; other site 931281006115 H-loop/switch region; other site 931281006116 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 931281006117 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 931281006118 Interdomain contacts; other site 931281006119 Cytokine receptor motif; other site 931281006120 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 931281006121 Transcriptional regulators [Transcription]; Region: FadR; COG2186 931281006122 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281006123 DNA-binding site [nucleotide binding]; DNA binding site 931281006124 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 931281006125 Transcriptional regulators [Transcription]; Region: FadR; COG2186 931281006126 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281006127 DNA-binding site [nucleotide binding]; DNA binding site 931281006128 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 931281006129 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 931281006130 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 931281006131 XdhC Rossmann domain; Region: XdhC_C; pfam13478 931281006132 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 931281006133 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 931281006134 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 931281006135 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 931281006136 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 931281006137 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 931281006138 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 931281006139 Cytochrome c; Region: Cytochrom_C; pfam00034 931281006140 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 931281006141 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 931281006142 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 931281006143 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 931281006144 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 931281006145 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 931281006146 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 931281006147 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 931281006148 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 931281006149 hypothetical protein; Provisional; Region: PRK06847 931281006150 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 931281006151 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 931281006152 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 931281006153 Isochorismatase family; Region: Isochorismatase; pfam00857 931281006154 N-carbamoylsarcosine amidohydrolase (CSHase) hydrolyzes N-carbamoylsarcosine to sarcosine, carbon dioxide and ammonia. CSHase is involved in one of the two alternative pathways for creatinine degradation to glycine in microorganisms.This...; Region: CSHase; cd01015 931281006155 catalytic triad [active] 931281006156 substrate binding site [chemical binding]; other site 931281006157 domain interfaces; other site 931281006158 conserved cis-peptide bond; other site 931281006159 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 931281006160 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 931281006161 putative substrate translocation pore; other site 931281006162 outer membrane porin, OprD family; Region: OprD; pfam03573 931281006163 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281006164 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281006165 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 931281006166 putative effector binding pocket; other site 931281006167 dimerization interface [polypeptide binding]; other site 931281006168 hypothetical protein; Provisional; Region: PRK10621 931281006169 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 931281006170 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 931281006171 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281006172 metal binding site [ion binding]; metal-binding site 931281006173 active site 931281006174 I-site; other site 931281006175 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 931281006176 transmembrane helices; other site 931281006177 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 931281006178 TrkA-C domain; Region: TrkA_C; pfam02080 931281006179 TrkA-C domain; Region: TrkA_C; pfam02080 931281006180 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 931281006181 transmembrane helices; other site 931281006182 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 931281006183 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 931281006184 S-adenosylmethionine binding site [chemical binding]; other site 931281006185 short chain dehydrogenase; Provisional; Region: PRK07035 931281006186 classical (c) SDRs; Region: SDR_c; cd05233 931281006187 NAD(P) binding site [chemical binding]; other site 931281006188 active site 931281006189 Phosphotransferase enzyme family; Region: APH; pfam01636 931281006190 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 931281006191 putative active site [active] 931281006192 putative substrate binding site [chemical binding]; other site 931281006193 ATP binding site [chemical binding]; other site 931281006194 SCP-2 sterol transfer family; Region: SCP2; pfam02036 931281006195 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 931281006196 catalytic core [active] 931281006197 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 931281006198 putative inner membrane peptidase; Provisional; Region: PRK11778 931281006199 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 931281006200 tandem repeat interface [polypeptide binding]; other site 931281006201 oligomer interface [polypeptide binding]; other site 931281006202 active site residues [active] 931281006203 potential frameshift: common BLAST hit: gi|170721918|ref|YP_001749606.1| DNA-directed DNA polymerase 931281006204 Y-family of DNA polymerases; Region: PolY; cl12025 931281006205 Y-family of DNA polymerases; Region: PolY; cl12025 931281006206 DNA binding site [nucleotide binding] 931281006207 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 931281006208 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 931281006209 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 931281006210 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 931281006211 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 931281006212 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 931281006213 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 931281006214 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 931281006215 putative NAD(P) binding site [chemical binding]; other site 931281006216 active site 931281006217 putative substrate binding site [chemical binding]; other site 931281006218 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 931281006219 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 931281006220 NAD binding site [chemical binding]; other site 931281006221 substrate binding site [chemical binding]; other site 931281006222 catalytic Zn binding site [ion binding]; other site 931281006223 tetramer interface [polypeptide binding]; other site 931281006224 structural Zn binding site [ion binding]; other site 931281006225 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281006226 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281006227 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 931281006228 dimerization interface [polypeptide binding]; other site 931281006229 putative transporter; Provisional; Region: PRK11043 931281006230 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 931281006231 putative substrate translocation pore; other site 931281006232 Predicted membrane protein [Function unknown]; Region: COG2259 931281006233 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 931281006234 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 931281006235 Putative phage tail protein; Region: Phage-tail_3; pfam13550 931281006236 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 931281006237 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 931281006238 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 931281006239 hypothetical protein; Provisional; Region: PHA03030 931281006240 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 931281006241 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 931281006242 P22 coat protein - gene protein 5; Region: P22_CoatProtein; pfam11651 931281006243 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 931281006244 Abortive infection C-terminus; Region: Abi_C; pfam14355 931281006245 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 931281006246 Terminase-like family; Region: Terminase_6; pfam03237 931281006247 Phage terminase large subunit; Region: Terminase_3; cl12054 931281006248 DEAD-like helicases superfamily; Region: DEXDc; smart00487 931281006249 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 931281006250 ATP binding site [chemical binding]; other site 931281006251 putative Mg++ binding site [ion binding]; other site 931281006252 Helix-turn-helix domain; Region: HTH_17; pfam12728 931281006253 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 931281006254 PAS domain; Region: PAS_9; pfam13426 931281006255 putative active site [active] 931281006256 heme pocket [chemical binding]; other site 931281006257 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 931281006258 dimer interface [polypeptide binding]; other site 931281006259 phosphorylation site [posttranslational modification] 931281006260 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 931281006261 ATP binding site [chemical binding]; other site 931281006262 Mg2+ binding site [ion binding]; other site 931281006263 G-X-G motif; other site 931281006264 circadian clock protein KaiC; Reviewed; Region: PRK09302 931281006265 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 931281006266 Walker A motif; other site 931281006267 ATP binding site [chemical binding]; other site 931281006268 Walker B motif; other site 931281006269 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 931281006270 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 931281006271 Walker A motif; other site 931281006272 Walker A motif; other site 931281006273 ATP binding site [chemical binding]; other site 931281006274 Walker B motif; other site 931281006275 Response regulator receiver domain; Region: Response_reg; pfam00072 931281006276 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281006277 active site 931281006278 phosphorylation site [posttranslational modification] 931281006279 intermolecular recognition site; other site 931281006280 dimerization interface [polypeptide binding]; other site 931281006281 carbon storage regulator; Provisional; Region: PRK01712 931281006282 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 931281006283 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 931281006284 active site 931281006285 DNA binding site [nucleotide binding] 931281006286 Int/Topo IB signature motif; other site 931281006287 catalytic residues [active] 931281006288 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281006289 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 931281006290 Walker A/P-loop; other site 931281006291 ATP binding site [chemical binding]; other site 931281006292 Q-loop/lid; other site 931281006293 ABC transporter signature motif; other site 931281006294 Walker B; other site 931281006295 D-loop; other site 931281006296 H-loop/switch region; other site 931281006297 TOBE domain; Region: TOBE; cl01440 931281006298 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 931281006299 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 931281006300 dimer interface [polypeptide binding]; other site 931281006301 conserved gate region; other site 931281006302 putative PBP binding loops; other site 931281006303 ABC-ATPase subunit interface; other site 931281006304 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 931281006305 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 931281006306 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 931281006307 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 931281006308 FMN binding site [chemical binding]; other site 931281006309 substrate binding site [chemical binding]; other site 931281006310 putative catalytic residue [active] 931281006311 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 931281006312 Cytochrome c553 [Energy production and conversion]; Region: COG2863 931281006313 Cytochrome c; Region: Cytochrom_C; cl11414 931281006314 Cytochrome c [Energy production and conversion]; Region: COG3258 931281006315 Cytochrome c; Region: Cytochrom_C; pfam00034 931281006316 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 931281006317 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 931281006318 active site 931281006319 tetramer interface; other site 931281006320 glutathione reductase; Validated; Region: PRK06116 931281006321 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 931281006322 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 931281006323 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 931281006324 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 931281006325 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 931281006326 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 931281006327 ligand binding site [chemical binding]; other site 931281006328 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 931281006329 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281006330 Walker A/P-loop; other site 931281006331 ATP binding site [chemical binding]; other site 931281006332 Q-loop/lid; other site 931281006333 ABC transporter signature motif; other site 931281006334 Walker B; other site 931281006335 D-loop; other site 931281006336 H-loop/switch region; other site 931281006337 TOBE domain; Region: TOBE_2; pfam08402 931281006338 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 931281006339 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 931281006340 dimer interface [polypeptide binding]; other site 931281006341 conserved gate region; other site 931281006342 putative PBP binding loops; other site 931281006343 ABC-ATPase subunit interface; other site 931281006344 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 931281006345 dimer interface [polypeptide binding]; other site 931281006346 conserved gate region; other site 931281006347 putative PBP binding loops; other site 931281006348 ABC-ATPase subunit interface; other site 931281006349 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 931281006350 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 931281006351 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK12485 931281006352 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 931281006353 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 931281006354 dimerization interface [polypeptide binding]; other site 931281006355 active site 931281006356 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 931281006357 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 931281006358 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 931281006359 LysR family transcriptional regulator; Provisional; Region: PRK14997 931281006360 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281006361 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 931281006362 putative effector binding pocket; other site 931281006363 dimerization interface [polypeptide binding]; other site 931281006364 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 931281006365 potential frameshift: common BLAST hit: gi|26990512|ref|NP_745937.1| thioesterase 931281006366 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 931281006367 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 931281006368 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 931281006369 catalytic triad [active] 931281006370 conserved cis-peptide bond; other site 931281006371 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 931281006372 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 931281006373 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 931281006374 intersubunit interface [polypeptide binding]; other site 931281006375 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 931281006376 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 931281006377 ABC-ATPase subunit interface; other site 931281006378 dimer interface [polypeptide binding]; other site 931281006379 putative PBP binding regions; other site 931281006380 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 931281006381 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 931281006382 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 931281006383 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 931281006384 metal binding site [ion binding]; metal-binding site 931281006385 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 931281006386 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 931281006387 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 931281006388 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 931281006389 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 931281006390 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 931281006391 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 931281006392 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 931281006393 Alginate lyase; Region: Alginate_lyase2; pfam08787 931281006394 Protein of unknown function (DUF1654); Region: DUF1654; pfam07867 931281006395 Predicted transcriptional regulator [Transcription]; Region: COG2932 931281006396 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 931281006397 Catalytic site [active] 931281006398 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 931281006399 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 931281006400 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 931281006401 shikimate binding site; other site 931281006402 NAD(P) binding site [chemical binding]; other site 931281006403 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 931281006404 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 931281006405 dimer interface [polypeptide binding]; other site 931281006406 active site 931281006407 metal binding site [ion binding]; metal-binding site 931281006408 glutathione binding site [chemical binding]; other site 931281006409 outer membrane porin, OprD family; Region: OprD; pfam03573 931281006410 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 931281006411 active site 931281006412 SAM binding site [chemical binding]; other site 931281006413 homodimer interface [polypeptide binding]; other site 931281006414 Response regulator receiver domain; Region: Response_reg; pfam00072 931281006415 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281006416 active site 931281006417 phosphorylation site [posttranslational modification] 931281006418 intermolecular recognition site; other site 931281006419 dimerization interface [polypeptide binding]; other site 931281006420 CHASE3 domain; Region: CHASE3; pfam05227 931281006421 GAF domain; Region: GAF; cl17456 931281006422 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 931281006423 dimer interface [polypeptide binding]; other site 931281006424 phosphorylation site [posttranslational modification] 931281006425 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 931281006426 ATP binding site [chemical binding]; other site 931281006427 Mg2+ binding site [ion binding]; other site 931281006428 G-X-G motif; other site 931281006429 Response regulator receiver domain; Region: Response_reg; pfam00072 931281006430 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281006431 active site 931281006432 phosphorylation site [posttranslational modification] 931281006433 intermolecular recognition site; other site 931281006434 dimerization interface [polypeptide binding]; other site 931281006435 Response regulator receiver domain; Region: Response_reg; pfam00072 931281006436 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281006437 active site 931281006438 phosphorylation site [posttranslational modification] 931281006439 intermolecular recognition site; other site 931281006440 Response regulator receiver domain; Region: Response_reg; pfam00072 931281006441 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281006442 active site 931281006443 phosphorylation site [posttranslational modification] 931281006444 intermolecular recognition site; other site 931281006445 dimerization interface [polypeptide binding]; other site 931281006446 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 931281006447 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 931281006448 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 931281006449 CheB methylesterase; Region: CheB_methylest; pfam01339 931281006450 Response regulator receiver domain; Region: Response_reg; pfam00072 931281006451 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281006452 active site 931281006453 phosphorylation site [posttranslational modification] 931281006454 intermolecular recognition site; other site 931281006455 dimerization interface [polypeptide binding]; other site 931281006456 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 931281006457 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 931281006458 dimer interface [polypeptide binding]; other site 931281006459 phosphorylation site [posttranslational modification] 931281006460 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 931281006461 ATP binding site [chemical binding]; other site 931281006462 Mg2+ binding site [ion binding]; other site 931281006463 G-X-G motif; other site 931281006464 Response regulator receiver domain; Region: Response_reg; pfam00072 931281006465 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281006466 active site 931281006467 phosphorylation site [posttranslational modification] 931281006468 intermolecular recognition site; other site 931281006469 dimerization interface [polypeptide binding]; other site 931281006470 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 931281006471 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 931281006472 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 931281006473 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 931281006474 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 931281006475 beta-ketothiolase; Provisional; Region: PRK09051 931281006476 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 931281006477 dimer interface [polypeptide binding]; other site 931281006478 active site 931281006479 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 931281006480 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 931281006481 SurA N-terminal domain; Region: SurA_N; pfam09312 931281006482 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281006483 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 931281006484 Uncharacterized conserved protein [Function unknown]; Region: COG2128 931281006485 putative cyanate transporter; Provisional; Region: cynX; PRK09705 931281006486 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 931281006487 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 931281006488 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281006489 DNA-binding site [nucleotide binding]; DNA binding site 931281006490 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 931281006491 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281006492 homodimer interface [polypeptide binding]; other site 931281006493 catalytic residue [active] 931281006494 Domain of unknown function (DUF336); Region: DUF336; cl01249 931281006495 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 931281006496 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 931281006497 Cysteine-rich domain; Region: CCG; pfam02754 931281006498 Cysteine-rich domain; Region: CCG; pfam02754 931281006499 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 931281006500 FAD binding domain; Region: FAD_binding_4; pfam01565 931281006501 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 931281006502 FAD binding domain; Region: FAD_binding_4; pfam01565 931281006503 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 931281006504 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281006505 DNA-binding site [nucleotide binding]; DNA binding site 931281006506 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 931281006507 conserverd hypothetical protein; Region: TIGR02448 931281006508 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 931281006509 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 931281006510 putative C-terminal domain interface [polypeptide binding]; other site 931281006511 putative GSH binding site (G-site) [chemical binding]; other site 931281006512 putative dimer interface [polypeptide binding]; other site 931281006513 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 931281006514 N-terminal domain interface [polypeptide binding]; other site 931281006515 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 931281006516 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 931281006517 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 931281006518 benzoate transport; Region: 2A0115; TIGR00895 931281006519 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 931281006520 outer membrane porin, OprD family; Region: OprD; pfam03573 931281006521 Transcriptional regulators [Transcription]; Region: FadR; COG2186 931281006522 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281006523 DNA-binding site [nucleotide binding]; DNA binding site 931281006524 FCD domain; Region: FCD; pfam07729 931281006525 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 931281006526 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 931281006527 FMN-binding pocket [chemical binding]; other site 931281006528 flavin binding motif; other site 931281006529 phosphate binding motif [ion binding]; other site 931281006530 beta-alpha-beta structure motif; other site 931281006531 NAD binding pocket [chemical binding]; other site 931281006532 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 931281006533 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 931281006534 catalytic loop [active] 931281006535 iron binding site [ion binding]; other site 931281006536 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 931281006537 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 931281006538 iron-sulfur cluster [ion binding]; other site 931281006539 [2Fe-2S] cluster binding site [ion binding]; other site 931281006540 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 931281006541 alpha subunit interface [polypeptide binding]; other site 931281006542 active site 931281006543 substrate binding site [chemical binding]; other site 931281006544 Fe binding site [ion binding]; other site 931281006545 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 931281006546 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 931281006547 Walker A/P-loop; other site 931281006548 ATP binding site [chemical binding]; other site 931281006549 Q-loop/lid; other site 931281006550 ABC transporter signature motif; other site 931281006551 Walker B; other site 931281006552 D-loop; other site 931281006553 H-loop/switch region; other site 931281006554 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 931281006555 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 931281006556 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 931281006557 enoyl-CoA hydratase; Provisional; Region: PRK06688 931281006558 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 931281006559 substrate binding site [chemical binding]; other site 931281006560 oxyanion hole (OAH) forming residues; other site 931281006561 trimer interface [polypeptide binding]; other site 931281006562 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 931281006563 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 931281006564 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 931281006565 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 931281006566 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281006567 active site 931281006568 phosphorylation site [posttranslational modification] 931281006569 intermolecular recognition site; other site 931281006570 dimerization interface [polypeptide binding]; other site 931281006571 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 931281006572 DNA binding site [nucleotide binding] 931281006573 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 931281006574 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281006575 substrate binding pocket [chemical binding]; other site 931281006576 membrane-bound complex binding site; other site 931281006577 hinge residues; other site 931281006578 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 931281006579 dimer interface [polypeptide binding]; other site 931281006580 phosphorylation site [posttranslational modification] 931281006581 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 931281006582 ATP binding site [chemical binding]; other site 931281006583 Mg2+ binding site [ion binding]; other site 931281006584 G-X-G motif; other site 931281006585 Response regulator receiver domain; Region: Response_reg; pfam00072 931281006586 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281006587 active site 931281006588 phosphorylation site [posttranslational modification] 931281006589 intermolecular recognition site; other site 931281006590 dimerization interface [polypeptide binding]; other site 931281006591 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 931281006592 putative binding surface; other site 931281006593 active site 931281006594 S-methylmethionine transporter; Provisional; Region: PRK11387 931281006595 enoyl-CoA hydratase; Provisional; Region: PRK06688 931281006596 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 931281006597 substrate binding site [chemical binding]; other site 931281006598 oxyanion hole (OAH) forming residues; other site 931281006599 trimer interface [polypeptide binding]; other site 931281006600 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 931281006601 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 931281006602 active site 931281006603 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 931281006604 CoA binding domain; Region: CoA_binding_2; pfam13380 931281006605 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 931281006606 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 931281006607 hypothetical protein; Provisional; Region: PRK07524 931281006608 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 931281006609 PYR/PP interface [polypeptide binding]; other site 931281006610 dimer interface [polypeptide binding]; other site 931281006611 TPP binding site [chemical binding]; other site 931281006612 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 931281006613 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 931281006614 TPP-binding site [chemical binding]; other site 931281006615 alanine racemase; Reviewed; Region: PRK13340 931281006616 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme, Alanine Racemase 2; Region: PLPDE_III_AR2; cd06826 931281006617 active site 931281006618 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 931281006619 dimer interface [polypeptide binding]; other site 931281006620 substrate binding site [chemical binding]; other site 931281006621 catalytic residues [active] 931281006622 aspartate aminotransferase; Provisional; Region: PRK05764 931281006623 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 931281006624 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281006625 homodimer interface [polypeptide binding]; other site 931281006626 catalytic residue [active] 931281006627 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 931281006628 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 931281006629 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 931281006630 hypothetical protein; Provisional; Region: PRK07036 931281006631 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 931281006632 inhibitor-cofactor binding pocket; inhibition site 931281006633 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281006634 catalytic residue [active] 931281006635 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 931281006636 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 931281006637 DNA binding residues [nucleotide binding] 931281006638 dimerization interface [polypeptide binding]; other site 931281006639 Tetratricopeptide repeat; Region: TPR_16; pfam13432 931281006640 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 931281006641 TPR motif; other site 931281006642 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 931281006643 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281006644 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 931281006645 dimerization interface [polypeptide binding]; other site 931281006646 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 931281006647 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 931281006648 octamer interface [polypeptide binding]; other site 931281006649 active site 931281006650 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 931281006651 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 931281006652 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 931281006653 dimer interface [polypeptide binding]; other site 931281006654 active site 931281006655 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 931281006656 Coenzyme A binding pocket [chemical binding]; other site 931281006657 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 931281006658 PAS domain; Region: PAS_9; pfam13426 931281006659 putative active site [active] 931281006660 heme pocket [chemical binding]; other site 931281006661 PAS fold; Region: PAS_4; pfam08448 931281006662 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 931281006663 putative active site [active] 931281006664 heme pocket [chemical binding]; other site 931281006665 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281006666 metal binding site [ion binding]; metal-binding site 931281006667 active site 931281006668 I-site; other site 931281006669 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 931281006670 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 931281006671 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 931281006672 active site 931281006673 catalytic tetrad [active] 931281006674 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 931281006675 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281006676 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281006677 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 931281006678 putative substrate binding pocket [chemical binding]; other site 931281006679 putative dimerization interface [polypeptide binding]; other site 931281006680 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 931281006681 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 931281006682 dimer interface [polypeptide binding]; other site 931281006683 active site 931281006684 heme binding site [chemical binding]; other site 931281006685 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 931281006686 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 931281006687 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 931281006688 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 931281006689 active site 931281006690 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 931281006691 metabolite-proton symporter; Region: 2A0106; TIGR00883 931281006692 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 931281006693 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 931281006694 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 931281006695 conserved cys residue [active] 931281006696 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 931281006697 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 931281006698 domain interface [polypeptide binding]; other site 931281006699 putative active site [active] 931281006700 catalytic site [active] 931281006701 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 931281006702 domain interface [polypeptide binding]; other site 931281006703 putative active site [active] 931281006704 catalytic site [active] 931281006705 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 931281006706 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281006707 metal binding site [ion binding]; metal-binding site 931281006708 active site 931281006709 I-site; other site 931281006710 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 931281006711 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 931281006712 Predicted membrane protein [Function unknown]; Region: COG2855 931281006713 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281006714 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 931281006715 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 931281006716 putative dimerization interface [polypeptide binding]; other site 931281006717 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 931281006718 active site 931281006719 sporadically distributed protein, TIGR04141 family; Region: TIGR04141 931281006720 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 931281006721 putative substrate translocation pore; other site 931281006722 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 931281006723 active site 931281006724 oxalacetate binding site [chemical binding]; other site 931281006725 citrylCoA binding site [chemical binding]; other site 931281006726 coenzyme A binding site [chemical binding]; other site 931281006727 catalytic triad [active] 931281006728 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 931281006729 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 931281006730 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281006731 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 931281006732 substrate binding pocket [chemical binding]; other site 931281006733 membrane-bound complex binding site; other site 931281006734 hinge residues; other site 931281006735 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 931281006736 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 931281006737 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 931281006738 active site 931281006739 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 931281006740 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 931281006741 homotrimer interaction site [polypeptide binding]; other site 931281006742 putative active site [active] 931281006743 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 931281006744 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 931281006745 classical (c) SDRs; Region: SDR_c; cd05233 931281006746 NAD(P) binding site [chemical binding]; other site 931281006747 active site 931281006748 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 931281006749 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 931281006750 active site 931281006751 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 931281006752 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 931281006753 active site 2 [active] 931281006754 active site 1 [active] 931281006755 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 931281006756 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 931281006757 acyl-activating enzyme (AAE) consensus motif; other site 931281006758 AMP binding site [chemical binding]; other site 931281006759 active site 931281006760 CoA binding site [chemical binding]; other site 931281006761 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 931281006762 Predicted amidohydrolase [General function prediction only]; Region: COG0388 931281006763 putative active site [active] 931281006764 catalytic triad [active] 931281006765 putative dimer interface [polypeptide binding]; other site 931281006766 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 931281006767 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 931281006768 Walker A/P-loop; other site 931281006769 ATP binding site [chemical binding]; other site 931281006770 Q-loop/lid; other site 931281006771 ABC transporter signature motif; other site 931281006772 Walker B; other site 931281006773 D-loop; other site 931281006774 H-loop/switch region; other site 931281006775 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 931281006776 dimer interface [polypeptide binding]; other site 931281006777 conserved gate region; other site 931281006778 putative PBP binding loops; other site 931281006779 ABC-ATPase subunit interface; other site 931281006780 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 931281006781 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 931281006782 dimer interface [polypeptide binding]; other site 931281006783 conserved gate region; other site 931281006784 putative PBP binding loops; other site 931281006785 ABC-ATPase subunit interface; other site 931281006786 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 931281006787 Major Facilitator Superfamily; Region: MFS_1; pfam07690 931281006788 putative substrate translocation pore; other site 931281006789 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 931281006790 Cache domain; Region: Cache_1; pfam02743 931281006791 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 931281006792 dimerization interface [polypeptide binding]; other site 931281006793 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 931281006794 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 931281006795 dimer interface [polypeptide binding]; other site 931281006796 putative CheW interface [polypeptide binding]; other site 931281006797 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 931281006798 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 931281006799 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 931281006800 ABC transporter; Region: ABC_tran_2; pfam12848 931281006801 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 931281006802 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 931281006803 Transcriptional regulators [Transcription]; Region: FadR; COG2186 931281006804 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281006805 DNA-binding site [nucleotide binding]; DNA binding site 931281006806 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 931281006807 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 931281006808 NAD binding site [chemical binding]; other site 931281006809 catalytic residues [active] 931281006810 amino acid transporter; Region: 2A0306; TIGR00909 931281006811 choline dehydrogenase; Validated; Region: PRK02106 931281006812 lycopene cyclase; Region: lycopene_cycl; TIGR01789 931281006813 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 931281006814 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 931281006815 HNH endonuclease; Region: HNH_2; pfam13391 931281006816 AAA domain; Region: AAA_12; pfam13087 931281006817 AAA domain; Region: AAA_23; pfam13476 931281006818 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 931281006819 Walker A/P-loop; other site 931281006820 ATP binding site [chemical binding]; other site 931281006821 Protein of unknown function (DUF3732); Region: DUF3732; pfam12532 931281006822 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 931281006823 nucleotide binding region [chemical binding]; other site 931281006824 ATP-binding site [chemical binding]; other site 931281006825 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 931281006826 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 931281006827 sequence-specific DNA binding site [nucleotide binding]; other site 931281006828 salt bridge; other site 931281006829 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 931281006830 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 931281006831 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 931281006832 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 931281006833 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 931281006834 P-loop; other site 931281006835 Magnesium ion binding site [ion binding]; other site 931281006836 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 931281006837 active site 931281006838 catalytic residues [active] 931281006839 DNA binding site [nucleotide binding] 931281006840 Int/Topo IB signature motif; other site 931281006841 Putative phage integrase; Region: Phage_Integr_2; pfam13009 931281006842 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 931281006843 DNA binding site [nucleotide binding] 931281006844 active site 931281006845 Int/Topo IB signature motif; other site 931281006846 catalytic residues [active] 931281006847 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 931281006848 active site 931281006849 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 931281006850 catalytic triad [active] 931281006851 metal binding site [ion binding]; metal-binding site 931281006852 conserved cis-peptide bond; other site 931281006853 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 931281006854 nudix motif; other site 931281006855 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 931281006856 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 931281006857 Na binding site [ion binding]; other site 931281006858 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 931281006859 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 931281006860 putative DNA binding site [nucleotide binding]; other site 931281006861 putative Zn2+ binding site [ion binding]; other site 931281006862 AsnC family; Region: AsnC_trans_reg; pfam01037 931281006863 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 931281006864 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 931281006865 PAS fold; Region: PAS_4; pfam08448 931281006866 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 931281006867 GAF domain; Region: GAF; pfam01590 931281006868 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 931281006869 dimer interface [polypeptide binding]; other site 931281006870 phosphorylation site [posttranslational modification] 931281006871 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 931281006872 ATP binding site [chemical binding]; other site 931281006873 Mg2+ binding site [ion binding]; other site 931281006874 G-X-G motif; other site 931281006875 Response regulator receiver domain; Region: Response_reg; pfam00072 931281006876 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281006877 active site 931281006878 phosphorylation site [posttranslational modification] 931281006879 intermolecular recognition site; other site 931281006880 dimerization interface [polypeptide binding]; other site 931281006881 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_4; cd04511 931281006882 nudix motif; other site 931281006883 Transcriptional regulators [Transcription]; Region: GntR; COG1802 931281006884 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281006885 DNA-binding site [nucleotide binding]; DNA binding site 931281006886 FCD domain; Region: FCD; pfam07729 931281006887 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 931281006888 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 931281006889 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 931281006890 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 931281006891 NAD(P) binding site [chemical binding]; other site 931281006892 catalytic residues [active] 931281006893 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 931281006894 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 931281006895 Amino acid synthesis; Region: AA_synth; pfam06684 931281006896 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 931281006897 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 931281006898 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 931281006899 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 931281006900 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 931281006901 Na binding site [ion binding]; other site 931281006902 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 931281006903 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 931281006904 dimerization interface [polypeptide binding]; other site 931281006905 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 931281006906 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 931281006907 dimer interface [polypeptide binding]; other site 931281006908 putative CheW interface [polypeptide binding]; other site 931281006909 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 931281006910 Predicted transcriptional regulator [Transcription]; Region: COG1959 931281006911 Transcriptional regulator; Region: Rrf2; pfam02082 931281006912 Cupin; Region: Cupin_6; pfam12852 931281006913 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 931281006914 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281006915 Uncharacterized conserved protein [Function unknown]; Region: COG2128 931281006916 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 931281006917 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 931281006918 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 931281006919 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 931281006920 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 931281006921 Walker A/P-loop; other site 931281006922 ATP binding site [chemical binding]; other site 931281006923 Q-loop/lid; other site 931281006924 ABC transporter signature motif; other site 931281006925 Walker B; other site 931281006926 D-loop; other site 931281006927 H-loop/switch region; other site 931281006928 NMT1-like family; Region: NMT1_2; pfam13379 931281006929 NMT1/THI5 like; Region: NMT1; pfam09084 931281006930 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 931281006931 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 931281006932 dimer interface [polypeptide binding]; other site 931281006933 conserved gate region; other site 931281006934 putative PBP binding loops; other site 931281006935 ABC-ATPase subunit interface; other site 931281006936 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 931281006937 Coenzyme A binding pocket [chemical binding]; other site 931281006938 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 931281006939 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 931281006940 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281006941 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281006942 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 931281006943 dimerization interface [polypeptide binding]; other site 931281006944 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 931281006945 Bacterial SH3 domain; Region: SH3_3; pfam08239 931281006946 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 931281006947 dimer interface [polypeptide binding]; other site 931281006948 BCCT family transporter; Region: BCCT; pfam02028 931281006949 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 931281006950 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 931281006951 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281006952 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 931281006953 substrate binding pocket [chemical binding]; other site 931281006954 membrane-bound complex binding site; other site 931281006955 hinge residues; other site 931281006956 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 931281006957 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 931281006958 Cytochrome c; Region: Cytochrom_C; pfam00034 931281006959 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 931281006960 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 931281006961 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 931281006962 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 931281006963 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 931281006964 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 931281006965 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 931281006966 catalytic loop [active] 931281006967 iron binding site [ion binding]; other site 931281006968 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 931281006969 YcaO domain protein; Region: TIGR03549 931281006970 OsmC-like protein; Region: OsmC; pfam02566 931281006971 YcaO-like family; Region: YcaO; pfam02624 931281006972 Protein of unknown function (DUF3303); Region: DUF3303; pfam11746 931281006973 Protein of unknown function (DUF3303); Region: DUF3303; pfam11746 931281006974 Protein of unknown function (DUF3303); Region: DUF3303; pfam11746 931281006975 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 931281006976 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 931281006977 potential frameshift: common BLAST hit: gi|26990323|ref|NP_745748.1| TonB-dependent siderophore receptor 931281006978 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 931281006979 ligand-binding site [chemical binding]; other site 931281006980 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 931281006981 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 931281006982 Protein of unknown function, DUF606; Region: DUF606; pfam04657 931281006983 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281006984 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281006985 The C-terminal substrate binding domain of LysR-type transcriptional regulator ToxR regulates the expression of the toxoflavin biosynthesis genes; contains the type 2 periplasmic bindinig fold; Region: PBP2_ToxR; cd08465 931281006986 putative substrate binding pocket [chemical binding]; other site 931281006987 putative dimerization interface [polypeptide binding]; other site 931281006988 Predicted transporter component [General function prediction only]; Region: COG2391 931281006989 Sulphur transport; Region: Sulf_transp; pfam04143 931281006990 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 931281006991 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 931281006992 NADP binding site [chemical binding]; other site 931281006993 dimer interface [polypeptide binding]; other site 931281006994 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281006995 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281006996 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 931281006997 putative effector binding pocket; other site 931281006998 dimerization interface [polypeptide binding]; other site 931281006999 Protein of unknown function (DUF998); Region: DUF998; pfam06197 931281007000 Transcriptional regulators [Transcription]; Region: FadR; COG2186 931281007001 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281007002 DNA-binding site [nucleotide binding]; DNA binding site 931281007003 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 931281007004 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 931281007005 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 931281007006 dimer interface [polypeptide binding]; other site 931281007007 NADP binding site [chemical binding]; other site 931281007008 catalytic residues [active] 931281007009 galactarate dehydratase; Region: galactar-dH20; TIGR03248 931281007010 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 931281007011 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 931281007012 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 931281007013 D-galactonate transporter; Region: 2A0114; TIGR00893 931281007014 putative substrate translocation pore; other site 931281007015 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 931281007016 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 931281007017 putative active site [active] 931281007018 catalytic residue [active] 931281007019 Peptidase C26; Region: Peptidase_C26; pfam07722 931281007020 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 931281007021 catalytic triad [active] 931281007022 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 931281007023 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 931281007024 Walker A/P-loop; other site 931281007025 ATP binding site [chemical binding]; other site 931281007026 Q-loop/lid; other site 931281007027 ABC transporter signature motif; other site 931281007028 Walker B; other site 931281007029 D-loop; other site 931281007030 H-loop/switch region; other site 931281007031 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 931281007032 hydroxyglutarate oxidase; Provisional; Region: PRK11728 931281007033 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 931281007034 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 931281007035 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 931281007036 dimer interface [polypeptide binding]; other site 931281007037 putative PBP binding loops; other site 931281007038 ABC-ATPase subunit interface; other site 931281007039 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 931281007040 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 931281007041 dimer interface [polypeptide binding]; other site 931281007042 conserved gate region; other site 931281007043 putative PBP binding loops; other site 931281007044 ABC-ATPase subunit interface; other site 931281007045 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281007046 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 931281007047 substrate binding pocket [chemical binding]; other site 931281007048 membrane-bound complex binding site; other site 931281007049 hinge residues; other site 931281007050 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 931281007051 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 931281007052 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 931281007053 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 931281007054 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 931281007055 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 931281007056 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281007057 homodimer interface [polypeptide binding]; other site 931281007058 catalytic residue [active] 931281007059 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 931281007060 serine transporter; Region: stp; TIGR00814 931281007061 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 931281007062 putative substrate translocation pore; other site 931281007063 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 931281007064 dimer interface [polypeptide binding]; other site 931281007065 catalytic triad [active] 931281007066 peroxidatic and resolving cysteines [active] 931281007067 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 931281007068 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 931281007069 HlyD family secretion protein; Region: HlyD_3; pfam13437 931281007070 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 931281007071 Protein export membrane protein; Region: SecD_SecF; cl14618 931281007072 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 931281007073 Protein export membrane protein; Region: SecD_SecF; cl14618 931281007074 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 931281007075 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 931281007076 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 931281007077 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 931281007078 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 931281007079 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281007080 metal binding site [ion binding]; metal-binding site 931281007081 active site 931281007082 I-site; other site 931281007083 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 931281007084 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 931281007085 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 931281007086 phosphoglucomutase; Validated; Region: PRK07564 931281007087 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 931281007088 active site 931281007089 substrate binding site [chemical binding]; other site 931281007090 metal binding site [ion binding]; metal-binding site 931281007091 RNA polymerase sigma factor; Provisional; Region: PRK12528 931281007092 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 931281007093 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 931281007094 DNA binding residues [nucleotide binding] 931281007095 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 931281007096 FecR protein; Region: FecR; pfam04773 931281007097 Secretin and TonB N terminus short domain; Region: STN; smart00965 931281007098 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 931281007099 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 931281007100 N-terminal plug; other site 931281007101 ligand-binding site [chemical binding]; other site 931281007102 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 931281007103 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281007104 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 931281007105 dimerization interface [polypeptide binding]; other site 931281007106 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 931281007107 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 931281007108 active site 931281007109 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 931281007110 homotrimer interaction site [polypeptide binding]; other site 931281007111 putative active site [active] 931281007112 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 931281007113 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 931281007114 Uncharacterized conserved protein [Function unknown]; Region: COG3342 931281007115 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 931281007116 acetylornithine deacetylase; Provisional; Region: PRK07522 931281007117 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 931281007118 metal binding site [ion binding]; metal-binding site 931281007119 putative dimer interface [polypeptide binding]; other site 931281007120 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 931281007121 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 931281007122 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 931281007123 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 931281007124 Trp docking motif [polypeptide binding]; other site 931281007125 putative active site [active] 931281007126 Cupin domain; Region: Cupin_2; cl17218 931281007127 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281007128 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281007129 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 931281007130 putative effector binding pocket; other site 931281007131 dimerization interface [polypeptide binding]; other site 931281007132 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 931281007133 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 931281007134 LysE type translocator; Region: LysE; cl00565 931281007135 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 931281007136 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 931281007137 conserved cys residue [active] 931281007138 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281007139 SCP: SCP-like extracellular protein domain, found in eukaryotes and prokaryotes. This family includes plant pathogenesis-related protein 1 (PR-1), which accumulates after infections with pathogens, and may act as an anti-fungal agent or be involved in...; Region: SCP; cl00133 931281007140 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 931281007141 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 931281007142 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 931281007143 Predicted permeases [General function prediction only]; Region: COG0679 931281007144 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281007145 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281007146 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 931281007147 putative dimerization interface [polypeptide binding]; other site 931281007148 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 931281007149 dimer interface [polypeptide binding]; other site 931281007150 conserved gate region; other site 931281007151 ABC-ATPase subunit interface; other site 931281007152 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 931281007153 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 931281007154 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 931281007155 dimerization interface [polypeptide binding]; other site 931281007156 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 931281007157 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 931281007158 dimer interface [polypeptide binding]; other site 931281007159 putative CheW interface [polypeptide binding]; other site 931281007160 Predicted permease [General function prediction only]; Region: COG2056 931281007161 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 931281007162 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; cl17322 931281007163 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 931281007164 FecR protein; Region: FecR; pfam04773 931281007165 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 931281007166 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 931281007167 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 931281007168 active site 931281007169 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 931281007170 acyl-CoA synthetase; Validated; Region: PRK08162 931281007171 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 931281007172 acyl-activating enzyme (AAE) consensus motif; other site 931281007173 putative active site [active] 931281007174 AMP binding site [chemical binding]; other site 931281007175 putative CoA binding site [chemical binding]; other site 931281007176 PAS domain S-box; Region: sensory_box; TIGR00229 931281007177 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 931281007178 putative active site [active] 931281007179 heme pocket [chemical binding]; other site 931281007180 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 931281007181 dimer interface [polypeptide binding]; other site 931281007182 phosphorylation site [posttranslational modification] 931281007183 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 931281007184 ATP binding site [chemical binding]; other site 931281007185 G-X-G motif; other site 931281007186 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 931281007187 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281007188 active site 931281007189 phosphorylation site [posttranslational modification] 931281007190 intermolecular recognition site; other site 931281007191 dimerization interface [polypeptide binding]; other site 931281007192 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 931281007193 DNA binding residues [nucleotide binding] 931281007194 dimerization interface [polypeptide binding]; other site 931281007195 MarR family; Region: MarR_2; cl17246 931281007196 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 931281007197 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 931281007198 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 931281007199 HlyD family secretion protein; Region: HlyD_3; pfam13437 931281007200 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 931281007201 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 931281007202 putative substrate translocation pore; other site 931281007203 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 931281007204 short chain dehydrogenase; Provisional; Region: PRK06123 931281007205 classical (c) SDRs; Region: SDR_c; cd05233 931281007206 NAD(P) binding site [chemical binding]; other site 931281007207 active site 931281007208 PAS fold; Region: PAS_7; pfam12860 931281007209 PAS domain; Region: PAS_9; pfam13426 931281007210 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 931281007211 ATP binding site [chemical binding]; other site 931281007212 Mg2+ binding site [ion binding]; other site 931281007213 G-X-G motif; other site 931281007214 Response regulator receiver domain; Region: Response_reg; pfam00072 931281007215 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281007216 active site 931281007217 phosphorylation site [posttranslational modification] 931281007218 intermolecular recognition site; other site 931281007219 dimerization interface [polypeptide binding]; other site 931281007220 PAS fold; Region: PAS_4; pfam08448 931281007221 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 931281007222 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 931281007223 dimer interface [polypeptide binding]; other site 931281007224 phosphorylation site [posttranslational modification] 931281007225 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 931281007226 ATP binding site [chemical binding]; other site 931281007227 Mg2+ binding site [ion binding]; other site 931281007228 G-X-G motif; other site 931281007229 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 931281007230 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281007231 active site 931281007232 phosphorylation site [posttranslational modification] 931281007233 intermolecular recognition site; other site 931281007234 dimerization interface [polypeptide binding]; other site 931281007235 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 931281007236 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281007237 DNA-binding site [nucleotide binding]; DNA binding site 931281007238 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 931281007239 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281007240 homodimer interface [polypeptide binding]; other site 931281007241 catalytic residue [active] 931281007242 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 931281007243 4Fe-4S binding domain; Region: Fer4_5; pfam12801 931281007244 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 931281007245 Protein of unknown function (DUF3203); Region: DUF3203; pfam11462 931281007246 MgtC family; Region: MgtC; pfam02308 931281007247 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 931281007248 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 931281007249 active site 931281007250 catalytic residues [active] 931281007251 metal binding site [ion binding]; metal-binding site 931281007252 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 931281007253 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 931281007254 DNA binding residues [nucleotide binding] 931281007255 putative dimer interface [polypeptide binding]; other site 931281007256 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 931281007257 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 931281007258 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281007259 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 931281007260 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 931281007261 NAD(P) binding site [chemical binding]; other site 931281007262 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 931281007263 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 931281007264 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 931281007265 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281007266 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281007267 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 931281007268 dimerization interface [polypeptide binding]; other site 931281007269 ornithine cyclodeaminase; Validated; Region: PRK07589 931281007270 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 931281007271 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 931281007272 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 931281007273 putative DNA binding site [nucleotide binding]; other site 931281007274 putative Zn2+ binding site [ion binding]; other site 931281007275 AsnC family; Region: AsnC_trans_reg; pfam01037 931281007276 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 931281007277 hydrophobic ligand binding site; other site 931281007278 hypothetical protein; Provisional; Region: PRK11171 931281007279 Cupin domain; Region: Cupin_2; pfam07883 931281007280 Cupin domain; Region: Cupin_2; pfam07883 931281007281 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 931281007282 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 931281007283 active site 931281007284 non-prolyl cis peptide bond; other site 931281007285 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 931281007286 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281007287 substrate binding pocket [chemical binding]; other site 931281007288 membrane-bound complex binding site; other site 931281007289 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 931281007290 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 931281007291 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 931281007292 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 931281007293 conserved cys residue [active] 931281007294 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281007295 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 931281007296 homotrimer interaction site [polypeptide binding]; other site 931281007297 putative active site [active] 931281007298 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 931281007299 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 931281007300 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 931281007301 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 931281007302 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281007303 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 931281007304 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 931281007305 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 931281007306 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 931281007307 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281007308 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281007309 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 931281007310 dimerization interface [polypeptide binding]; other site 931281007311 Predicted membrane protein [Function unknown]; Region: COG4125 931281007312 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 931281007313 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 931281007314 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 931281007315 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 931281007316 homodimer interface [polypeptide binding]; other site 931281007317 substrate-cofactor binding pocket; other site 931281007318 catalytic residue [active] 931281007319 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 931281007320 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281007321 Walker A/P-loop; other site 931281007322 ATP binding site [chemical binding]; other site 931281007323 Q-loop/lid; other site 931281007324 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 931281007325 ABC transporter signature motif; other site 931281007326 Walker B; other site 931281007327 D-loop; other site 931281007328 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 931281007329 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 931281007330 Walker A motif; other site 931281007331 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 931281007332 dimer interface [polypeptide binding]; other site 931281007333 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 931281007334 ligand binding site [chemical binding]; other site 931281007335 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 931281007336 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 931281007337 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 931281007338 potential frameshift: common BLAST hit: gi|26990219|ref|NP_745644.1| cobaltochelatase subunit CobN 931281007339 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 931281007340 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 931281007341 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 931281007342 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 931281007343 magnesium chelatase ATPase subunit I; Region: BchI-ChlI; TIGR02030 931281007344 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 931281007345 Walker A motif; other site 931281007346 ATP binding site [chemical binding]; other site 931281007347 Walker B motif; other site 931281007348 arginine finger; other site 931281007349 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 931281007350 metal ion-dependent adhesion site (MIDAS); other site 931281007351 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 931281007352 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 931281007353 Walker A motif; other site 931281007354 ATP binding site [chemical binding]; other site 931281007355 Walker B motif; other site 931281007356 arginine finger; other site 931281007357 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 931281007358 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 931281007359 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 931281007360 Peptidase family U32; Region: Peptidase_U32; pfam01136 931281007361 Collagenase; Region: DUF3656; pfam12392 931281007362 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 931281007363 homotrimer interaction site [polypeptide binding]; other site 931281007364 putative active site [active] 931281007365 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 931281007366 Family of unknown function (DUF633); Region: DUF633; pfam04816 931281007367 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 931281007368 transcriptional regulator; Provisional; Region: PRK10632 931281007369 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281007370 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 931281007371 putative effector binding pocket; other site 931281007372 dimerization interface [polypeptide binding]; other site 931281007373 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 931281007374 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 931281007375 active site 931281007376 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 931281007377 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 931281007378 substrate binding site [chemical binding]; other site 931281007379 oxyanion hole (OAH) forming residues; other site 931281007380 trimer interface [polypeptide binding]; other site 931281007381 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 931281007382 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 931281007383 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 931281007384 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 931281007385 FixH; Region: FixH; pfam05751 931281007386 YtkA-like; Region: YtkA; pfam13115 931281007387 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 931281007388 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 931281007389 Cu(I) binding site [ion binding]; other site 931281007390 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 931281007391 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 931281007392 Cu(I) binding site [ion binding]; other site 931281007393 Cytochrome c; Region: Cytochrom_C; pfam00034 931281007394 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 931281007395 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 931281007396 ligand binding site [chemical binding]; other site 931281007397 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 931281007398 SurA N-terminal domain; Region: SurA_N_3; cl07813 931281007399 Response regulator receiver domain; Region: Response_reg; pfam00072 931281007400 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281007401 active site 931281007402 phosphorylation site [posttranslational modification] 931281007403 intermolecular recognition site; other site 931281007404 dimerization interface [polypeptide binding]; other site 931281007405 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 931281007406 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 931281007407 Walker A motif; other site 931281007408 ATP binding site [chemical binding]; other site 931281007409 Walker B motif; other site 931281007410 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 931281007411 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 931281007412 TPR motif; other site 931281007413 binding surface 931281007414 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 931281007415 Secretin and TonB N terminus short domain; Region: STN; smart00965 931281007416 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 931281007417 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 931281007418 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 931281007419 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 931281007420 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 931281007421 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 931281007422 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 931281007423 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 931281007424 curli assembly protein CsgE; Provisional; Region: PRK10386 931281007425 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 931281007426 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 931281007427 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 931281007428 GAF domain; Region: GAF; pfam01590 931281007429 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 931281007430 putative active site [active] 931281007431 heme pocket [chemical binding]; other site 931281007432 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 931281007433 ATP binding site [chemical binding]; other site 931281007434 Walker A motif; other site 931281007435 Walker B motif; other site 931281007436 arginine finger; other site 931281007437 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 931281007438 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 931281007439 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 931281007440 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281007441 Walker A/P-loop; other site 931281007442 ATP binding site [chemical binding]; other site 931281007443 Q-loop/lid; other site 931281007444 ABC transporter signature motif; other site 931281007445 Walker B; other site 931281007446 D-loop; other site 931281007447 H-loop/switch region; other site 931281007448 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 931281007449 active site 931281007450 catalytic residues [active] 931281007451 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 931281007452 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 931281007453 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 931281007454 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 931281007455 NAD(P) binding site [chemical binding]; other site 931281007456 catalytic residues [active] 931281007457 quinohemoprotein amine dehydrogenase, alpha subunit; Region: QH_alpha; TIGR03908 931281007458 Quinohemoprotein amine dehydrogenase A, alpha subunit, haem binding; Region: Dehyd-heme_bind; pfam09098 931281007459 Bacterial Ig-like domain (DUF1927); Region: DUF1927; pfam09099 931281007460 Domain of unknown function (DUF1928); Region: DUF1928; pfam09100 931281007461 quinohemoprotein amine dehydrogenase maturation protein; Region: quino_hemo_SAM; TIGR03906 931281007462 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 931281007463 FeS/SAM binding site; other site 931281007464 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 931281007465 Quinohemoprotein amine dehydrogenase, gamma subunit; Region: QH-AmDH_gamma; pfam08992 931281007466 quinohemoprotein amine dehydrogenase, beta subunit; Region: QH_beta; TIGR03907 931281007467 acyl-CoA synthetase; Provisional; Region: PRK12583 931281007468 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 931281007469 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 931281007470 acyl-activating enzyme (AAE) consensus motif; other site 931281007471 putative AMP binding site [chemical binding]; other site 931281007472 putative active site [active] 931281007473 putative CoA binding site [chemical binding]; other site 931281007474 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 931281007475 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 931281007476 GTP binding site; other site 931281007477 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 931281007478 Protein export membrane protein; Region: SecD_SecF; cl14618 931281007479 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 931281007480 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 931281007481 HlyD family secretion protein; Region: HlyD_3; pfam13437 931281007482 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 931281007483 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281007484 active site 931281007485 phosphorylation site [posttranslational modification] 931281007486 intermolecular recognition site; other site 931281007487 dimerization interface [polypeptide binding]; other site 931281007488 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 931281007489 DNA binding site [nucleotide binding] 931281007490 sensor protein RstB; Provisional; Region: PRK10604 931281007491 HAMP domain; Region: HAMP; pfam00672 931281007492 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 931281007493 dimer interface [polypeptide binding]; other site 931281007494 phosphorylation site [posttranslational modification] 931281007495 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 931281007496 ATP binding site [chemical binding]; other site 931281007497 Mg2+ binding site [ion binding]; other site 931281007498 G-X-G motif; other site 931281007499 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 931281007500 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281007501 metal binding site [ion binding]; metal-binding site 931281007502 active site 931281007503 I-site; other site 931281007504 hypothetical protein; Provisional; Region: PRK09936 931281007505 bacteriophage N4 receptor, outer membrane subunit; Provisional; Region: PRK09782 931281007506 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 931281007507 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 931281007508 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 931281007509 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 931281007510 Predicted membrane protein [Function unknown]; Region: COG4125 931281007511 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 931281007512 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 931281007513 threonine dehydratase; Reviewed; Region: PRK12483 931281007514 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 931281007515 tetramer interface [polypeptide binding]; other site 931281007516 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281007517 catalytic residue [active] 931281007518 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 931281007519 putative Ile/Val binding site [chemical binding]; other site 931281007520 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 931281007521 putative Ile/Val binding site [chemical binding]; other site 931281007522 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 931281007523 putative dimer interface [polypeptide binding]; other site 931281007524 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 931281007525 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 931281007526 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 931281007527 tetrameric interface [polypeptide binding]; other site 931281007528 activator binding site; other site 931281007529 NADP binding site [chemical binding]; other site 931281007530 substrate binding site [chemical binding]; other site 931281007531 catalytic residues [active] 931281007532 Protein of unknown function (DUF563); Region: DUF563; pfam04577 931281007533 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 931281007534 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 931281007535 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 931281007536 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 931281007537 Transporter associated domain; Region: CorC_HlyC; smart01091 931281007538 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 931281007539 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 931281007540 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 931281007541 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 931281007542 dimer interface [polypeptide binding]; other site 931281007543 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 931281007544 active site 931281007545 Fe binding site [ion binding]; other site 931281007546 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 931281007547 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 931281007548 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 931281007549 potential catalytic triad [active] 931281007550 conserved cys residue [active] 931281007551 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 931281007552 PAS domain; Region: PAS_9; pfam13426 931281007553 putative active site [active] 931281007554 heme pocket [chemical binding]; other site 931281007555 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 931281007556 ATP binding site [chemical binding]; other site 931281007557 Mg2+ binding site [ion binding]; other site 931281007558 G-X-G motif; other site 931281007559 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281007560 active site 931281007561 phosphorylation site [posttranslational modification] 931281007562 intermolecular recognition site; other site 931281007563 dimerization interface [polypeptide binding]; other site 931281007564 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 931281007565 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 931281007566 dimer interface [polypeptide binding]; other site 931281007567 phosphorylation site [posttranslational modification] 931281007568 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 931281007569 ATP binding site [chemical binding]; other site 931281007570 Mg2+ binding site [ion binding]; other site 931281007571 G-X-G motif; other site 931281007572 Response regulator receiver domain; Region: Response_reg; pfam00072 931281007573 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281007574 active site 931281007575 phosphorylation site [posttranslational modification] 931281007576 intermolecular recognition site; other site 931281007577 dimerization interface [polypeptide binding]; other site 931281007578 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 931281007579 binding surface 931281007580 TPR motif; other site 931281007581 TPR repeat; Region: TPR_11; pfam13414 931281007582 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 931281007583 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 931281007584 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 931281007585 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 931281007586 HlyD family secretion protein; Region: HlyD_3; pfam13437 931281007587 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 931281007588 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 931281007589 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 931281007590 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 931281007591 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 931281007592 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 931281007593 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 931281007594 N-acetyl-D-glucosamine binding site [chemical binding]; other site 931281007595 catalytic residue [active] 931281007596 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 931281007597 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 931281007598 dimer interface [polypeptide binding]; other site 931281007599 phosphorylation site [posttranslational modification] 931281007600 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 931281007601 ATP binding site [chemical binding]; other site 931281007602 Mg2+ binding site [ion binding]; other site 931281007603 G-X-G motif; other site 931281007604 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 931281007605 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 931281007606 dimer interface [polypeptide binding]; other site 931281007607 phosphorylation site [posttranslational modification] 931281007608 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 931281007609 ATP binding site [chemical binding]; other site 931281007610 Mg2+ binding site [ion binding]; other site 931281007611 G-X-G motif; other site 931281007612 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 931281007613 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281007614 active site 931281007615 phosphorylation site [posttranslational modification] 931281007616 intermolecular recognition site; other site 931281007617 dimerization interface [polypeptide binding]; other site 931281007618 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 931281007619 Walker A motif; other site 931281007620 ATP binding site [chemical binding]; other site 931281007621 Walker B motif; other site 931281007622 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 931281007623 fructuronate transporter; Provisional; Region: PRK10034; cl15264 931281007624 GntP family permease; Region: GntP_permease; pfam02447 931281007625 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 931281007626 ATP-binding site [chemical binding]; other site 931281007627 Gluconate-6-phosphate binding site [chemical binding]; other site 931281007628 Transcriptional regulators [Transcription]; Region: PurR; COG1609 931281007629 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 931281007630 DNA binding site [nucleotide binding] 931281007631 domain linker motif; other site 931281007632 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 931281007633 putative ligand binding site [chemical binding]; other site 931281007634 putative dimerization interface [polypeptide binding]; other site 931281007635 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 931281007636 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 931281007637 putative active site [active] 931281007638 heme pocket [chemical binding]; other site 931281007639 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 931281007640 putative active site [active] 931281007641 heme pocket [chemical binding]; other site 931281007642 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 931281007643 dimer interface [polypeptide binding]; other site 931281007644 putative CheW interface [polypeptide binding]; other site 931281007645 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281007646 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 931281007647 substrate binding pocket [chemical binding]; other site 931281007648 membrane-bound complex binding site; other site 931281007649 hinge residues; other site 931281007650 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281007651 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 931281007652 substrate binding pocket [chemical binding]; other site 931281007653 membrane-bound complex binding site; other site 931281007654 hinge residues; other site 931281007655 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 931281007656 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 931281007657 dimer interface [polypeptide binding]; other site 931281007658 phosphorylation site [posttranslational modification] 931281007659 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 931281007660 ATP binding site [chemical binding]; other site 931281007661 Mg2+ binding site [ion binding]; other site 931281007662 G-X-G motif; other site 931281007663 Response regulator receiver domain; Region: Response_reg; pfam00072 931281007664 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281007665 active site 931281007666 phosphorylation site [posttranslational modification] 931281007667 intermolecular recognition site; other site 931281007668 dimerization interface [polypeptide binding]; other site 931281007669 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 931281007670 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281007671 active site 931281007672 phosphorylation site [posttranslational modification] 931281007673 intermolecular recognition site; other site 931281007674 dimerization interface [polypeptide binding]; other site 931281007675 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 931281007676 DNA binding residues [nucleotide binding] 931281007677 dimerization interface [polypeptide binding]; other site 931281007678 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 931281007679 active site 931281007680 SAM binding site [chemical binding]; other site 931281007681 homodimer interface [polypeptide binding]; other site 931281007682 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 931281007683 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 931281007684 Probable cobalt transporter subunit (CbtB); Region: CbtB; pfam09489 931281007685 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 931281007686 Coenzyme A binding pocket [chemical binding]; other site 931281007687 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 931281007688 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 931281007689 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 931281007690 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 931281007691 Pirin-related protein [General function prediction only]; Region: COG1741 931281007692 Pirin; Region: Pirin; pfam02678 931281007693 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 931281007694 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 931281007695 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 931281007696 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 931281007697 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 931281007698 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 931281007699 Curlin associated repeat; Region: Curlin_rpt; pfam07012 931281007700 Curlin associated repeat; Region: Curlin_rpt; pfam07012 931281007701 Curlin associated repeat; Region: Curlin_rpt; pfam07012 931281007702 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 931281007703 active site 931281007704 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 931281007705 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 931281007706 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 931281007707 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 931281007708 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 931281007709 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 931281007710 Transcriptional regulators [Transcription]; Region: PurR; COG1609 931281007711 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 931281007712 DNA binding site [nucleotide binding] 931281007713 domain linker motif; other site 931281007714 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 931281007715 putative dimerization interface [polypeptide binding]; other site 931281007716 putative ligand binding site [chemical binding]; other site 931281007717 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 931281007718 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 931281007719 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 931281007720 substrate binding site [chemical binding]; other site 931281007721 ATP binding site [chemical binding]; other site 931281007722 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 931281007723 D-galactonate transporter; Region: 2A0114; TIGR00893 931281007724 putative substrate translocation pore; other site 931281007725 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 931281007726 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 931281007727 dimerization interface [polypeptide binding]; other site 931281007728 ligand binding site [chemical binding]; other site 931281007729 NADP binding site [chemical binding]; other site 931281007730 catalytic site [active] 931281007731 DNA-specific endonuclease I; Provisional; Region: PRK15137 931281007732 Endonuclease I; Region: Endonuclease_1; pfam04231 931281007733 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 931281007734 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 931281007735 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 931281007736 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 931281007737 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 931281007738 Surface antigen; Region: Bac_surface_Ag; pfam01103 931281007739 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 931281007740 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281007741 active site 931281007742 phosphorylation site [posttranslational modification] 931281007743 intermolecular recognition site; other site 931281007744 dimerization interface [polypeptide binding]; other site 931281007745 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 931281007746 DNA binding site [nucleotide binding] 931281007747 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 931281007748 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 931281007749 dimerization interface [polypeptide binding]; other site 931281007750 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 931281007751 dimer interface [polypeptide binding]; other site 931281007752 phosphorylation site [posttranslational modification] 931281007753 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 931281007754 ATP binding site [chemical binding]; other site 931281007755 Mg2+ binding site [ion binding]; other site 931281007756 G-X-G motif; other site 931281007757 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 931281007758 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 931281007759 active site 931281007760 catalytic tetrad [active] 931281007761 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281007762 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281007763 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 931281007764 dimerization interface [polypeptide binding]; other site 931281007765 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 931281007766 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 931281007767 putative substrate translocation pore; other site 931281007768 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 931281007769 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 931281007770 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281007771 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281007772 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 931281007773 dimerization interface [polypeptide binding]; other site 931281007774 potential frameshift: common BLAST hit: gi|148547614|ref|YP_001267716.1| acetolactate synthase 931281007775 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 931281007776 PYR/PP interface [polypeptide binding]; other site 931281007777 dimer interface [polypeptide binding]; other site 931281007778 TPP binding site [chemical binding]; other site 931281007779 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 931281007780 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 931281007781 TPP-binding site [chemical binding]; other site 931281007782 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 931281007783 GAF domain; Region: GAF; pfam01590 931281007784 Phytochrome region; Region: PHY; pfam00360 931281007785 HWE histidine kinase; Region: HWE_HK; pfam07536 931281007786 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 931281007787 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281007788 active site 931281007789 phosphorylation site [posttranslational modification] 931281007790 intermolecular recognition site; other site 931281007791 dimerization interface [polypeptide binding]; other site 931281007792 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 931281007793 Thymidylate kinase; Region: Thymidylate_kin; pfam02223 931281007794 TMP-binding site; other site 931281007795 ATP-binding site [chemical binding]; other site 931281007796 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 931281007797 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 931281007798 AsnC family; Region: AsnC_trans_reg; pfam01037 931281007799 hypothetical protein; Provisional; Region: PRK06148 931281007800 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 931281007801 active site 931281007802 ATP binding site [chemical binding]; other site 931281007803 substrate binding site [chemical binding]; other site 931281007804 Peptidase family M23; Region: Peptidase_M23; pfam01551 931281007805 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 931281007806 inhibitor-cofactor binding pocket; inhibition site 931281007807 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281007808 catalytic residue [active] 931281007809 mechanosensitive channel MscS; Provisional; Region: PRK10334 931281007810 Mechanosensitive ion channel; Region: MS_channel; pfam00924 931281007811 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 931281007812 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281007813 metal binding site [ion binding]; metal-binding site 931281007814 active site 931281007815 I-site; other site 931281007816 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 931281007817 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 931281007818 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 931281007819 N-terminal plug; other site 931281007820 ligand-binding site [chemical binding]; other site 931281007821 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 931281007822 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281007823 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281007824 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 931281007825 dimerization interface [polypeptide binding]; other site 931281007826 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 931281007827 active site 931281007828 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 931281007829 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 931281007830 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 931281007831 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 931281007832 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 931281007833 N-terminal plug; other site 931281007834 ligand-binding site [chemical binding]; other site 931281007835 putative GTP cyclohydrolase; Provisional; Region: PRK13674 931281007836 outer membrane porin, OprD family; Region: OprD; pfam03573 931281007837 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; cd00531 931281007838 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 931281007839 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 931281007840 dimer interface [polypeptide binding]; other site 931281007841 acyl-activating enzyme (AAE) consensus motif; other site 931281007842 putative active site [active] 931281007843 AMP binding site [chemical binding]; other site 931281007844 putative CoA binding site [chemical binding]; other site 931281007845 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 931281007846 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 931281007847 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 931281007848 enoyl-CoA hydratase; Provisional; Region: PRK06495 931281007849 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 931281007850 substrate binding site [chemical binding]; other site 931281007851 oxyanion hole (OAH) forming residues; other site 931281007852 trimer interface [polypeptide binding]; other site 931281007853 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 931281007854 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 931281007855 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 931281007856 active site 931281007857 Transcriptional regulator [Transcription]; Region: IclR; COG1414 931281007858 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 931281007859 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 931281007860 classical (c) SDRs; Region: SDR_c; cd05233 931281007861 NAD(P) binding site [chemical binding]; other site 931281007862 active site 931281007863 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 931281007864 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 931281007865 CoA binding domain; Region: CoA_binding_2; pfam13380 931281007866 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 931281007867 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 931281007868 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 931281007869 short chain dehydrogenase; Validated; Region: PRK06484 931281007870 classical (c) SDRs; Region: SDR_c; cd05233 931281007871 NAD(P) binding site [chemical binding]; other site 931281007872 active site 931281007873 classical (c) SDRs; Region: SDR_c; cd05233 931281007874 NAD(P) binding site [chemical binding]; other site 931281007875 active site 931281007876 enoyl-CoA hydratase; Provisional; Region: PRK08140 931281007877 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 931281007878 substrate binding site [chemical binding]; other site 931281007879 oxyanion hole (OAH) forming residues; other site 931281007880 trimer interface [polypeptide binding]; other site 931281007881 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 931281007882 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 931281007883 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 931281007884 D-galactonate transporter; Region: 2A0114; TIGR00893 931281007885 putative substrate translocation pore; other site 931281007886 enoyl-CoA hydratase; Provisional; Region: PRK08138 931281007887 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 931281007888 substrate binding site [chemical binding]; other site 931281007889 oxyanion hole (OAH) forming residues; other site 931281007890 trimer interface [polypeptide binding]; other site 931281007891 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 931281007892 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 931281007893 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 931281007894 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 931281007895 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 931281007896 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 931281007897 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 931281007898 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 931281007899 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 931281007900 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 931281007901 putative active site [active] 931281007902 metal binding site [ion binding]; metal-binding site 931281007903 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 931281007904 active site 931281007905 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 931281007906 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 931281007907 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 931281007908 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 931281007909 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 931281007910 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 931281007911 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 931281007912 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 931281007913 Integral membrane protein TerC family; Region: TerC; cl10468 931281007914 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 931281007915 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 931281007916 putative substrate translocation pore; other site 931281007917 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 931281007918 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 931281007919 dimer interface [polypeptide binding]; other site 931281007920 active site 931281007921 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 931281007922 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 931281007923 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 931281007924 HlyD family secretion protein; Region: HlyD_3; pfam13437 931281007925 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 931281007926 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 931281007927 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 931281007928 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 931281007929 ACT domain; Region: ACT_3; pfam10000 931281007930 Family description; Region: ACT_7; pfam13840 931281007931 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 931281007932 Transcriptional regulators [Transcription]; Region: PurR; COG1609 931281007933 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 931281007934 DNA binding site [nucleotide binding] 931281007935 domain linker motif; other site 931281007936 Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_sucrose_transcription_regulator; cd06288 931281007937 putative dimerization interface [polypeptide binding]; other site 931281007938 putative ligand binding site [chemical binding]; other site 931281007939 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 931281007940 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 931281007941 substrate binding [chemical binding]; other site 931281007942 active site 931281007943 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 931281007944 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 931281007945 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 931281007946 Walker A/P-loop; other site 931281007947 ATP binding site [chemical binding]; other site 931281007948 Q-loop/lid; other site 931281007949 ABC transporter signature motif; other site 931281007950 Walker B; other site 931281007951 D-loop; other site 931281007952 H-loop/switch region; other site 931281007953 TOBE domain; Region: TOBE_2; pfam08402 931281007954 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 931281007955 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 931281007956 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 931281007957 dimer interface [polypeptide binding]; other site 931281007958 conserved gate region; other site 931281007959 putative PBP binding loops; other site 931281007960 ABC-ATPase subunit interface; other site 931281007961 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 931281007962 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 931281007963 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 931281007964 trimer interface; other site 931281007965 sugar binding site [chemical binding]; other site 931281007966 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 931281007967 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 931281007968 putative substrate binding site [chemical binding]; other site 931281007969 putative ATP binding site [chemical binding]; other site 931281007970 Ion channel; Region: Ion_trans_2; pfam07885 931281007971 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 931281007972 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 931281007973 Beta-Casp domain; Region: Beta-Casp; smart01027 931281007974 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 931281007975 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 931281007976 Ligand Binding Site [chemical binding]; other site 931281007977 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 931281007978 Coenzyme A binding pocket [chemical binding]; other site 931281007979 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 931281007980 Ligand Binding Site [chemical binding]; other site 931281007981 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 931281007982 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 931281007983 ligand binding site [chemical binding]; other site 931281007984 flexible hinge region; other site 931281007985 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 931281007986 putative switch regulator; other site 931281007987 non-specific DNA interactions [nucleotide binding]; other site 931281007988 DNA binding site [nucleotide binding] 931281007989 sequence specific DNA binding site [nucleotide binding]; other site 931281007990 putative cAMP binding site [chemical binding]; other site 931281007991 PaaX-like protein; Region: PaaX; pfam07848 931281007992 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 931281007993 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 931281007994 phenylacetic acid degradation protein PaaY; Region: PaaY; TIGR02287 931281007995 paaY-like: This group is composed by uncharacterized proteins with similarity to the protein product of the E. coli paaY gene, which is part of the paa gene cluster responsible for phenylacetic acid degradation. Proteins in this group are expected to...; Region: LbH_paaY_like; cd04745 931281007996 putative trimer interface [polypeptide binding]; other site 931281007997 putative metal binding site [ion binding]; other site 931281007998 enoyl-CoA hydratase-isomerase; Provisional; Region: PRK09674 931281007999 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 931281008000 substrate binding site [chemical binding]; other site 931281008001 oxyanion hole (OAH) forming residues; other site 931281008002 trimer interface [polypeptide binding]; other site 931281008003 enoyl-CoA hydratase; Provisional; Region: PRK08140 931281008004 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 931281008005 substrate binding site [chemical binding]; other site 931281008006 oxyanion hole (OAH) forming residues; other site 931281008007 trimer interface [polypeptide binding]; other site 931281008008 3-hydroxyacyl-CoA dehydrogenase PaaC; Region: PaaC-3OHAcCoADH; TIGR02279 931281008009 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 931281008010 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 931281008011 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 931281008012 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 931281008013 CoenzymeA binding site [chemical binding]; other site 931281008014 subunit interaction site [polypeptide binding]; other site 931281008015 PHB binding site; other site 931281008016 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 931281008017 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 931281008018 dimer interface [polypeptide binding]; other site 931281008019 active site 931281008020 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 931281008021 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 931281008022 active site 931281008023 AMP binding site [chemical binding]; other site 931281008024 homodimer interface [polypeptide binding]; other site 931281008025 acyl-activating enzyme (AAE) consensus motif; other site 931281008026 CoA binding site [chemical binding]; other site 931281008027 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 931281008028 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 931281008029 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 931281008030 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 931281008031 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 931281008032 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 931281008033 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 931281008034 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 931281008035 FAD binding pocket [chemical binding]; other site 931281008036 FAD binding motif [chemical binding]; other site 931281008037 phosphate binding motif [ion binding]; other site 931281008038 beta-alpha-beta structure motif; other site 931281008039 NAD(p) ribose binding residues [chemical binding]; other site 931281008040 NAD binding pocket [chemical binding]; other site 931281008041 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 931281008042 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 931281008043 catalytic loop [active] 931281008044 iron binding site [ion binding]; other site 931281008045 Protein of unknown function, DUF485; Region: DUF485; pfam04341 931281008046 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 931281008047 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 931281008048 Na binding site [ion binding]; other site 931281008049 outer membrane porin, OprD family; Region: OprD; pfam03573 931281008050 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 931281008051 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 931281008052 substrate binding site [chemical binding]; other site 931281008053 dimer interface [polypeptide binding]; other site 931281008054 NADP binding site [chemical binding]; other site 931281008055 catalytic residues [active] 931281008056 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 931281008057 substrate binding site [chemical binding]; other site 931281008058 General stress protein [General function prediction only]; Region: GsiB; COG3729 931281008059 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_10; cd04667 931281008060 nudix motif; other site 931281008061 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 931281008062 active site 931281008063 Protein of unknown function DUF72; Region: DUF72; pfam01904 931281008064 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 931281008065 putative catalytic site [active] 931281008066 putative metal binding site [ion binding]; other site 931281008067 putative phosphate binding site [ion binding]; other site 931281008068 cardiolipin synthase 2; Provisional; Region: PRK11263 931281008069 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 931281008070 putative active site [active] 931281008071 catalytic site [active] 931281008072 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 931281008073 putative active site [active] 931281008074 catalytic site [active] 931281008075 Predicted integral membrane protein [Function unknown]; Region: COG0392 931281008076 Prokaryotic metallothionein; Region: Metallothio_Pro; pfam02069 931281008077 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 931281008078 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 931281008079 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 931281008080 active site 931281008081 DNA binding site [nucleotide binding] 931281008082 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 931281008083 DNA binding site [nucleotide binding] 931281008084 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 931281008085 nucleotide binding site [chemical binding]; other site 931281008086 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 931281008087 active site 931281008088 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 931281008089 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 931281008090 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 931281008091 active site 931281008092 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 931281008093 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 931281008094 putative DNA binding site [nucleotide binding]; other site 931281008095 putative homodimer interface [polypeptide binding]; other site 931281008096 nucleosidase; Provisional; Region: PRK05634 931281008097 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 931281008098 carboxylate-amine ligase; Provisional; Region: PRK13515 931281008099 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 931281008100 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 931281008101 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 931281008102 S-adenosylmethionine binding site [chemical binding]; other site 931281008103 TLC ATP/ADP transporter; Region: TLC; cl03940 931281008104 TLC ATP/ADP transporter; Region: TLC; cl03940 931281008105 TLC ATP/ADP transporter; Region: TLC; cl03940 931281008106 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 931281008107 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 931281008108 active site 931281008109 catalytic tetrad [active] 931281008110 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 931281008111 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 931281008112 Sodium Bile acid symporter family; Region: SBF; pfam01758 931281008113 beta-carotene hydroxylase; Region: PLN02601 931281008114 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 931281008115 MgtC family; Region: MgtC; pfam02308 931281008116 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 931281008117 Cache domain; Region: Cache_1; pfam02743 931281008118 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281008119 metal binding site [ion binding]; metal-binding site 931281008120 active site 931281008121 I-site; other site 931281008122 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 931281008123 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 931281008124 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 931281008125 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 931281008126 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 931281008127 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 931281008128 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 931281008129 iron-sulfur cluster [ion binding]; other site 931281008130 [2Fe-2S] cluster binding site [ion binding]; other site 931281008131 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 931281008132 hydrophobic ligand binding site; other site 931281008133 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 931281008134 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 931281008135 Walker A/P-loop; other site 931281008136 ATP binding site [chemical binding]; other site 931281008137 Q-loop/lid; other site 931281008138 ABC transporter signature motif; other site 931281008139 Walker B; other site 931281008140 D-loop; other site 931281008141 H-loop/switch region; other site 931281008142 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 931281008143 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 931281008144 dimer interface [polypeptide binding]; other site 931281008145 conserved gate region; other site 931281008146 ABC-ATPase subunit interface; other site 931281008147 amidohydrolase; Provisional; Region: PRK12393 931281008148 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 931281008149 active site 931281008150 putative substrate binding pocket [chemical binding]; other site 931281008151 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 931281008152 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 931281008153 FMN-binding pocket [chemical binding]; other site 931281008154 flavin binding motif; other site 931281008155 phosphate binding motif [ion binding]; other site 931281008156 beta-alpha-beta structure motif; other site 931281008157 NAD binding pocket [chemical binding]; other site 931281008158 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 931281008159 catalytic loop [active] 931281008160 iron binding site [ion binding]; other site 931281008161 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 931281008162 YheO-like PAS domain; Region: PAS_6; pfam08348 931281008163 HTH domain; Region: HTH_22; pfam13309 931281008164 hypothetical protein; Provisional; Region: PRK06815 931281008165 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 931281008166 tetramer interface [polypeptide binding]; other site 931281008167 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281008168 catalytic residue [active] 931281008169 ornithine cyclodeaminase; Validated; Region: PRK06823 931281008170 ectoine utilization protein EutC; Validated; Region: PRK08291 931281008171 cytosine deaminase; Provisional; Region: PRK09230 931281008172 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 931281008173 active site 931281008174 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 931281008175 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 931281008176 cytosine permease; Provisional; Region: codB; PRK11017 931281008177 Na binding site [ion binding]; other site 931281008178 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 931281008179 Putative transcription activator [Transcription]; Region: TenA; COG0819 931281008180 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 931281008181 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 931281008182 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281008183 metal binding site [ion binding]; metal-binding site 931281008184 active site 931281008185 I-site; other site 931281008186 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 931281008187 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 931281008188 DNA binding site [nucleotide binding] 931281008189 dimer interface [polypeptide binding]; other site 931281008190 active site 931281008191 Int/Topo IB signature motif; other site 931281008192 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 931281008193 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 931281008194 NAD(P) binding site [chemical binding]; other site 931281008195 active site 931281008196 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 931281008197 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 931281008198 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281008199 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 931281008200 dimerization interface [polypeptide binding]; other site 931281008201 substrate binding pocket [chemical binding]; other site 931281008202 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 931281008203 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 931281008204 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 931281008205 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 931281008206 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 931281008207 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 931281008208 putative substrate translocation pore; other site 931281008209 AIFL (apoptosis-inducing factor like) family, N-terminal Rieske domain; members of this family show similarity to human AIFL, containing an N-terminal Rieske domain and a C-terminal pyridine nucleotide-disulfide oxidoreductase domain (Pyr_redox). The...; Region: Rieske_AIFL_N; cd03478 931281008210 [2Fe-2S] cluster binding site [ion binding]; other site 931281008211 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 931281008212 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 931281008213 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 931281008214 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 931281008215 active site 931281008216 catalytic tetrad [active] 931281008217 TraX protein; Region: TraX; pfam05857 931281008218 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 931281008219 outer membrane porin, OprD family; Region: OprD; pfam03573 931281008220 Benzoate membrane transport protein; Region: BenE; pfam03594 931281008221 benzoate transporter; Region: benE; TIGR00843 931281008222 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 931281008223 active site 931281008224 benzoate transport; Region: 2A0115; TIGR00895 931281008225 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 931281008226 putative substrate translocation pore; other site 931281008227 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 931281008228 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 931281008229 putative NAD(P) binding site [chemical binding]; other site 931281008230 active site 931281008231 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 931281008232 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 931281008233 catalytic loop [active] 931281008234 iron binding site [ion binding]; other site 931281008235 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 931281008236 FAD binding pocket [chemical binding]; other site 931281008237 FAD binding motif [chemical binding]; other site 931281008238 phosphate binding motif [ion binding]; other site 931281008239 beta-alpha-beta structure motif; other site 931281008240 NAD binding pocket [chemical binding]; other site 931281008241 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 931281008242 inter-subunit interface; other site 931281008243 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 931281008244 Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_HBDO; cd03542 931281008245 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 931281008246 putative alpha subunit interface [polypeptide binding]; other site 931281008247 putative active site [active] 931281008248 putative substrate binding site [chemical binding]; other site 931281008249 Fe binding site [ion binding]; other site 931281008250 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 931281008251 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 931281008252 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281008253 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 931281008254 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 931281008255 active site 931281008256 universal stress protein UspE; Provisional; Region: PRK11175 931281008257 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 931281008258 Ligand Binding Site [chemical binding]; other site 931281008259 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 931281008260 Ligand Binding Site [chemical binding]; other site 931281008261 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 931281008262 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 931281008263 N-terminal plug; other site 931281008264 ligand-binding site [chemical binding]; other site 931281008265 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 931281008266 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281008267 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281008268 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 931281008269 putative dimerization interface [polypeptide binding]; other site 931281008270 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 931281008271 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 931281008272 NAD(P) binding site [chemical binding]; other site 931281008273 catalytic residues [active] 931281008274 AAA domain; Region: AAA_30; pfam13604 931281008275 Helix-turn-helix domain; Region: HTH_18; pfam12833 931281008276 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 931281008277 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 931281008278 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 931281008279 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 931281008280 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 931281008281 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 931281008282 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 931281008283 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 931281008284 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 931281008285 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 931281008286 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281008287 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 931281008288 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 931281008289 dimerization interface [polypeptide binding]; other site 931281008290 substrate binding pocket [chemical binding]; other site 931281008291 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 931281008292 Bacterial sugar transferase; Region: Bac_transf; pfam02397 931281008293 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 931281008294 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 931281008295 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 931281008296 DXD motif; other site 931281008297 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 931281008298 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 931281008299 putative ADP-binding pocket [chemical binding]; other site 931281008300 Protein of unknown function (DUF535); Region: DUF535; pfam04393 931281008301 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 931281008302 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 931281008303 active site 931281008304 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 931281008305 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 931281008306 trimer interface [polypeptide binding]; other site 931281008307 active site 931281008308 substrate binding site [chemical binding]; other site 931281008309 CoA binding site [chemical binding]; other site 931281008310 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 931281008311 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 931281008312 Probable Catalytic site; other site 931281008313 metal-binding site 931281008314 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 931281008315 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 931281008316 trimer interface [polypeptide binding]; other site 931281008317 active site 931281008318 substrate binding site [chemical binding]; other site 931281008319 CoA binding site [chemical binding]; other site 931281008320 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 931281008321 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 931281008322 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 931281008323 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 931281008324 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 931281008325 NAD binding site [chemical binding]; other site 931281008326 homodimer interface [polypeptide binding]; other site 931281008327 active site 931281008328 substrate binding site [chemical binding]; other site 931281008329 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 931281008330 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 931281008331 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 931281008332 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 931281008333 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 931281008334 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 931281008335 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 931281008336 non-specific DNA binding site [nucleotide binding]; other site 931281008337 salt bridge; other site 931281008338 sequence-specific DNA binding site [nucleotide binding]; other site 931281008339 Cupin domain; Region: Cupin_2; pfam07883 931281008340 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 931281008341 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 931281008342 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 931281008343 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281008344 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281008345 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 931281008346 putative dimerization interface [polypeptide binding]; other site 931281008347 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 931281008348 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 931281008349 active site 931281008350 catalytic tetrad [active] 931281008351 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 931281008352 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 931281008353 putative active site [active] 931281008354 putative PHP Thumb interface [polypeptide binding]; other site 931281008355 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 931281008356 generic binding surface I; other site 931281008357 generic binding surface II; other site 931281008358 DNA Polymerase Y-family; Region: PolY_like; cd03468 931281008359 active site 931281008360 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 931281008361 DNA binding site [nucleotide binding] 931281008362 Cell division inhibitor SulA; Region: SulA; cl01880 931281008363 LexA repressor; Provisional; Region: PRK12423 931281008364 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 931281008365 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 931281008366 Catalytic site [active] 931281008367 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 931281008368 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 931281008369 motif II; other site 931281008370 benzoate transport; Region: 2A0115; TIGR00895 931281008371 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 931281008372 putative substrate translocation pore; other site 931281008373 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 931281008374 NIPSNAP; Region: NIPSNAP; pfam07978 931281008375 putative succinate dehydrogenase; Reviewed; Region: PRK12842 931281008376 Predicted oxidoreductase [General function prediction only]; Region: COG3573 931281008377 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 931281008378 classical (c) SDRs; Region: SDR_c; cd05233 931281008379 NAD(P) binding site [chemical binding]; other site 931281008380 active site 931281008381 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 931281008382 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281008383 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 931281008384 Transcriptional regulator [Transcription]; Region: IclR; COG1414 931281008385 amidase; Provisional; Region: PRK07486 931281008386 Amidase; Region: Amidase; cl11426 931281008387 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 931281008388 metabolite-proton symporter; Region: 2A0106; TIGR00883 931281008389 putative substrate translocation pore; other site 931281008390 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 931281008391 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 931281008392 metal binding site [ion binding]; metal-binding site 931281008393 putative dimer interface [polypeptide binding]; other site 931281008394 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 931281008395 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 931281008396 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 931281008397 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281008398 Walker A/P-loop; other site 931281008399 ATP binding site [chemical binding]; other site 931281008400 Q-loop/lid; other site 931281008401 ABC transporter signature motif; other site 931281008402 Walker B; other site 931281008403 D-loop; other site 931281008404 H-loop/switch region; other site 931281008405 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 931281008406 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 931281008407 putative substrate translocation pore; other site 931281008408 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 931281008409 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 931281008410 HlyD family secretion protein; Region: HlyD_3; pfam13437 931281008411 Predicted permeases [General function prediction only]; Region: COG0679 931281008412 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 931281008413 putative substrate translocation pore; other site 931281008414 Major Facilitator Superfamily; Region: MFS_1; pfam07690 931281008415 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 931281008416 substrate binding site [chemical binding]; other site 931281008417 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 931281008418 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 931281008419 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 931281008420 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 931281008421 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 931281008422 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 931281008423 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 931281008424 dimer interface [polypeptide binding]; other site 931281008425 conserved gate region; other site 931281008426 putative PBP binding loops; other site 931281008427 ABC-ATPase subunit interface; other site 931281008428 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 931281008429 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 931281008430 dimer interface [polypeptide binding]; other site 931281008431 conserved gate region; other site 931281008432 putative PBP binding loops; other site 931281008433 ABC-ATPase subunit interface; other site 931281008434 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 931281008435 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 931281008436 Walker B motif; other site 931281008437 arginine finger; other site 931281008438 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 931281008439 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 931281008440 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 931281008441 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 931281008442 NAD binding site [chemical binding]; other site 931281008443 homotetramer interface [polypeptide binding]; other site 931281008444 homodimer interface [polypeptide binding]; other site 931281008445 substrate binding site [chemical binding]; other site 931281008446 active site 931281008447 ecotin; Provisional; Region: PRK03719 931281008448 secondary substrate binding site; other site 931281008449 primary substrate binding site; other site 931281008450 inhibition loop; other site 931281008451 dimerization interface [polypeptide binding]; other site 931281008452 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 931281008453 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 931281008454 acyl-activating enzyme (AAE) consensus motif; other site 931281008455 putative AMP binding site [chemical binding]; other site 931281008456 putative active site [active] 931281008457 putative CoA binding site [chemical binding]; other site 931281008458 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 931281008459 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 931281008460 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 931281008461 Autotransporter beta-domain; Region: Autotransporter; smart00869 931281008462 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 931281008463 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 931281008464 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281008465 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 931281008466 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281008467 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 931281008468 Predicted amidohydrolase [General function prediction only]; Region: COG0388 931281008469 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 931281008470 active site 931281008471 catalytic triad [active] 931281008472 dimer interface [polypeptide binding]; other site 931281008473 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 931281008474 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 931281008475 DNA binding site [nucleotide binding] 931281008476 active site 931281008477 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK09822 931281008478 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 931281008479 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 931281008480 acyl-activating enzyme (AAE) consensus motif; other site 931281008481 AMP binding site [chemical binding]; other site 931281008482 active site 931281008483 CoA binding site [chemical binding]; other site 931281008484 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 931281008485 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 931281008486 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 931281008487 active site 931281008488 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 931281008489 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 931281008490 Protein export membrane protein; Region: SecD_SecF; cl14618 931281008491 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 931281008492 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 931281008493 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 931281008494 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 931281008495 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 931281008496 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 931281008497 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 931281008498 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281008499 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 931281008500 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 931281008501 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 931281008502 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 931281008503 putative substrate translocation pore; other site 931281008504 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 931281008505 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 931281008506 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 931281008507 substrate binding pocket [chemical binding]; other site 931281008508 active site 931281008509 iron coordination sites [ion binding]; other site 931281008510 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 931281008511 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 931281008512 NADP binding site [chemical binding]; other site 931281008513 dimer interface [polypeptide binding]; other site 931281008514 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 931281008515 RNA polymerase sigma factor; Provisional; Region: PRK12537 931281008516 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 931281008517 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 931281008518 DNA binding residues [nucleotide binding] 931281008519 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 931281008520 Anti-sigma-K factor rskA; Region: RskA; pfam10099 931281008521 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 931281008522 Dehydroquinase class II; Region: DHquinase_II; pfam01220 931281008523 trimer interface [polypeptide binding]; other site 931281008524 active site 931281008525 dimer interface [polypeptide binding]; other site 931281008526 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 931281008527 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 931281008528 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 931281008529 shikimate binding site; other site 931281008530 NAD(P) binding site [chemical binding]; other site 931281008531 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 931281008532 CoA-transferase family III; Region: CoA_transf_3; pfam02515 931281008533 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 931281008534 active site 931281008535 catalytic site [active] 931281008536 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 931281008537 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 931281008538 active site 931281008539 metal binding site [ion binding]; metal-binding site 931281008540 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 931281008541 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 931281008542 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 931281008543 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281008544 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281008545 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 931281008546 substrate binding pocket [chemical binding]; other site 931281008547 dimerization interface [polypeptide binding]; other site 931281008548 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 931281008549 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281008550 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281008551 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 931281008552 dimerization interface [polypeptide binding]; other site 931281008553 Cache domain; Region: Cache_1; pfam02743 931281008554 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 931281008555 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281008556 metal binding site [ion binding]; metal-binding site 931281008557 active site 931281008558 I-site; other site 931281008559 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 931281008560 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 931281008561 DNA binding residues [nucleotide binding] 931281008562 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 931281008563 FecR protein; Region: FecR; pfam04773 931281008564 Secretin and TonB N terminus short domain; Region: STN; smart00965 931281008565 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 931281008566 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 931281008567 N-terminal plug; other site 931281008568 ligand-binding site [chemical binding]; other site 931281008569 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 931281008570 classical (c) SDRs; Region: SDR_c; cd05233 931281008571 NAD(P) binding site [chemical binding]; other site 931281008572 active site 931281008573 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 931281008574 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 931281008575 putative NAD(P) binding site [chemical binding]; other site 931281008576 Predicted transcriptional regulators [Transcription]; Region: COG1733 931281008577 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 931281008578 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281008579 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281008580 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 931281008581 dimerization interface [polypeptide binding]; other site 931281008582 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 931281008583 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 931281008584 putative NADP binding site [chemical binding]; other site 931281008585 putative substrate binding site [chemical binding]; other site 931281008586 active site 931281008587 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 931281008588 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 931281008589 putative NAD(P) binding site [chemical binding]; other site 931281008590 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281008591 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281008592 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 931281008593 putative effector binding pocket; other site 931281008594 dimerization interface [polypeptide binding]; other site 931281008595 Cupin; Region: Cupin_6; pfam12852 931281008596 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 931281008597 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281008598 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281008599 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 931281008600 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 931281008601 GSH binding site [chemical binding]; other site 931281008602 catalytic residues [active] 931281008603 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 931281008604 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 931281008605 Coenzyme A binding pocket [chemical binding]; other site 931281008606 Peptidase_C39 like family; Region: DUF3335; pfam11814 931281008607 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 931281008608 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 931281008609 ATP-grasp domain; Region: ATP-grasp_4; cl17255 931281008610 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 931281008611 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 931281008612 Cl binding site [ion binding]; other site 931281008613 oligomer interface [polypeptide binding]; other site 931281008614 Uncharacterized conserved protein [Function unknown]; Region: COG1359 931281008615 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 931281008616 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 931281008617 putative NAD(P) binding site [chemical binding]; other site 931281008618 dimer interface [polypeptide binding]; other site 931281008619 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281008620 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281008621 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 931281008622 putative effector binding pocket; other site 931281008623 dimerization interface [polypeptide binding]; other site 931281008624 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 931281008625 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 931281008626 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 931281008627 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281008628 Haem-containing dehydratase; Region: Dehydratase_hem; pfam13816 931281008629 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 931281008630 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 931281008631 heme-binding site [chemical binding]; other site 931281008632 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 931281008633 amidase; Provisional; Region: PRK07235 931281008634 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 931281008635 putative TOMM peptide; Region: TOMM_nitrile_2; TIGR04351 931281008636 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 931281008637 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 931281008638 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 931281008639 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 931281008640 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 931281008641 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 931281008642 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 931281008643 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281008644 DNA-binding site [nucleotide binding]; DNA binding site 931281008645 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 931281008646 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281008647 homodimer interface [polypeptide binding]; other site 931281008648 catalytic residue [active] 931281008649 hypothetical protein; Provisional; Region: PRK09256 931281008650 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 931281008651 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 931281008652 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281008653 active site 931281008654 phosphorylation site [posttranslational modification] 931281008655 intermolecular recognition site; other site 931281008656 dimerization interface [polypeptide binding]; other site 931281008657 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 931281008658 dimer interface [polypeptide binding]; other site 931281008659 phosphorylation site [posttranslational modification] 931281008660 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 931281008661 ATP binding site [chemical binding]; other site 931281008662 Mg2+ binding site [ion binding]; other site 931281008663 G-X-G motif; other site 931281008664 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 931281008665 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 931281008666 ATP binding site [chemical binding]; other site 931281008667 Mg2+ binding site [ion binding]; other site 931281008668 G-X-G motif; other site 931281008669 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 931281008670 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 931281008671 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281008672 active site 931281008673 phosphorylation site [posttranslational modification] 931281008674 intermolecular recognition site; other site 931281008675 dimerization interface [polypeptide binding]; other site 931281008676 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 931281008677 Zn2+ binding site [ion binding]; other site 931281008678 Mg2+ binding site [ion binding]; other site 931281008679 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 931281008680 OsmC-like protein; Region: OsmC; cl00767 931281008681 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 931281008682 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 931281008683 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281008684 dimerization interface [polypeptide binding]; other site 931281008685 AzlC protein; Region: AzlC; cl00570 931281008686 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 931281008687 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 931281008688 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 931281008689 catalytic residues [active] 931281008690 catalytic nucleophile [active] 931281008691 Recombinase; Region: Recombinase; pfam07508 931281008692 ParB-like nuclease domain; Region: ParB; smart00470 931281008693 RepB plasmid partitioning protein; Region: RepB; pfam07506 931281008694 RepB plasmid partitioning protein; Region: RepB; pfam07506 931281008695 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 931281008696 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 931281008697 active site 931281008698 DNA binding site [nucleotide binding] 931281008699 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 931281008700 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 931281008701 virion protein; Provisional; Region: V; PHA02564 931281008702 Domain of unknown function (DUF1833); Region: DUF1833; pfam08875 931281008703 tape measure domain; Region: tape_meas_nterm; TIGR02675 931281008704 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 931281008705 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 931281008706 Phage tail protein; Region: Phage_tail_3; pfam08813 931281008707 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 931281008708 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 931281008709 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 931281008710 oligomerization interface [polypeptide binding]; other site 931281008711 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 931281008712 Phage capsid family; Region: Phage_capsid; pfam05065 931281008713 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 931281008714 oligomer interface [polypeptide binding]; other site 931281008715 active site residues [active] 931281008716 Phage portal protein; Region: Phage_portal; pfam04860 931281008717 Phage-related protein [Function unknown]; Region: COG4695 931281008718 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 931281008719 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 931281008720 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 931281008721 active site 931281008722 Int/Topo IB signature motif; other site 931281008723 VRR-NUC domain; Region: VRR_NUC; pfam08774 931281008724 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 931281008725 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 931281008726 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 931281008727 Walker A motif; other site 931281008728 ATP binding site [chemical binding]; other site 931281008729 Walker B motif; other site 931281008730 arginine finger; other site 931281008731 Bacteriophage replication protein O; Region: Phage_rep_O; cl04545 931281008732 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 931281008733 salt bridge; other site 931281008734 non-specific DNA binding site [nucleotide binding]; other site 931281008735 sequence-specific DNA binding site [nucleotide binding]; other site 931281008736 Predicted transcriptional regulator [Transcription]; Region: COG2932 931281008737 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 931281008738 Catalytic site [active] 931281008739 Protein of unknown function (DUF1654); Region: DUF1654; pfam07867 931281008740 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 931281008741 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 931281008742 DNA binding residues [nucleotide binding] 931281008743 dimerization interface [polypeptide binding]; other site 931281008744 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 931281008745 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 931281008746 dimer interface [polypeptide binding]; other site 931281008747 ssDNA binding site [nucleotide binding]; other site 931281008748 tetramer (dimer of dimers) interface [polypeptide binding]; other site 931281008749 Uncharacterized conserved protein (DUF2303); Region: DUF2303; cl02338 931281008750 TIGR00375 family protein; Region: TIGR00375 931281008751 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 931281008752 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 931281008753 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 931281008754 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 931281008755 active site 931281008756 DNA binding site [nucleotide binding] 931281008757 Int/Topo IB signature motif; other site 931281008758 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 931281008759 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 931281008760 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281008761 Walker A/P-loop; other site 931281008762 ATP binding site [chemical binding]; other site 931281008763 ABC transporter signature motif; other site 931281008764 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 931281008765 Walker B; other site 931281008766 ABC transporter; Region: ABC_tran_2; pfam12848 931281008767 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 931281008768 major facilitator superfamily transporter; Provisional; Region: PRK05122 931281008769 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 931281008770 putative S-transferase; Provisional; Region: PRK11752 931281008771 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 931281008772 C-terminal domain interface [polypeptide binding]; other site 931281008773 GSH binding site (G-site) [chemical binding]; other site 931281008774 dimer interface [polypeptide binding]; other site 931281008775 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 931281008776 dimer interface [polypeptide binding]; other site 931281008777 N-terminal domain interface [polypeptide binding]; other site 931281008778 active site 931281008779 amidase; Validated; Region: PRK06565 931281008780 Amidase; Region: Amidase; cl11426 931281008781 Amidase; Region: Amidase; cl11426 931281008782 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 931281008783 YheO-like PAS domain; Region: PAS_6; pfam08348 931281008784 HTH domain; Region: HTH_22; pfam13309 931281008785 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 931281008786 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 931281008787 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 931281008788 catalytic residue [active] 931281008789 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 931281008790 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 931281008791 dimer interface [polypeptide binding]; other site 931281008792 active site 931281008793 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 931281008794 catalytic residues [active] 931281008795 substrate binding site [chemical binding]; other site 931281008796 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 931281008797 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 931281008798 NAD(P) binding pocket [chemical binding]; other site 931281008799 Methyltransferase domain; Region: Methyltransf_31; pfam13847 931281008800 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 931281008801 S-adenosylmethionine binding site [chemical binding]; other site 931281008802 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 931281008803 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 931281008804 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 931281008805 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 931281008806 malate:quinone oxidoreductase; Validated; Region: PRK05257 931281008807 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 931281008808 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 931281008809 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 931281008810 FeS/SAM binding site; other site 931281008811 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 931281008812 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 931281008813 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 931281008814 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 931281008815 hypothetical protein; Provisional; Region: PRK12569 931281008816 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281008817 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281008818 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 931281008819 putative substrate binding pocket [chemical binding]; other site 931281008820 dimerization interface [polypeptide binding]; other site 931281008821 trehalose synthase, Pseudomonas stutzeri type; Region: TreS_stutzeri; TIGR02455 931281008822 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 931281008823 Lumazine binding domain; Region: Lum_binding; pfam00677 931281008824 Lumazine binding domain; Region: Lum_binding; pfam00677 931281008825 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 931281008826 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 931281008827 proline/glycine betaine transporter; Provisional; Region: PRK10642 931281008828 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 931281008829 putative substrate translocation pore; other site 931281008830 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 931281008831 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; cd00384 931281008832 dimer interface [polypeptide binding]; other site 931281008833 active site 931281008834 Schiff base residues; other site 931281008835 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 931281008836 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 931281008837 ATP binding site [chemical binding]; other site 931281008838 potential frameshift: common BLAST hit: gi|148547994|ref|YP_001268096.1| GABA permease 931281008839 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 931281008840 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 931281008841 Predicted dehydrogenase [General function prediction only]; Region: COG0579 931281008842 hydroxyglutarate oxidase; Provisional; Region: PRK11728 931281008843 carbon starvation induced protein; Validated; Region: PRK02963 931281008844 substrate binding pocket [chemical binding]; other site 931281008845 active site 931281008846 iron coordination sites [ion binding]; other site 931281008847 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281008848 DNA-binding site [nucleotide binding]; DNA binding site 931281008849 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 931281008850 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 931281008851 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281008852 active site 931281008853 phosphorylation site [posttranslational modification] 931281008854 intermolecular recognition site; other site 931281008855 dimerization interface [polypeptide binding]; other site 931281008856 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 931281008857 DNA binding site [nucleotide binding] 931281008858 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 931281008859 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 931281008860 dimerization interface [polypeptide binding]; other site 931281008861 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 931281008862 dimer interface [polypeptide binding]; other site 931281008863 phosphorylation site [posttranslational modification] 931281008864 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 931281008865 ATP binding site [chemical binding]; other site 931281008866 Mg2+ binding site [ion binding]; other site 931281008867 G-X-G motif; other site 931281008868 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 931281008869 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 931281008870 active site 931281008871 HIGH motif; other site 931281008872 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 931281008873 KMSKS motif; other site 931281008874 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 931281008875 tRNA binding surface [nucleotide binding]; other site 931281008876 anticodon binding site; other site 931281008877 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 931281008878 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 931281008879 active site 931281008880 HIGH motif; other site 931281008881 nucleotide binding site [chemical binding]; other site 931281008882 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 931281008883 KMSKS motif; other site 931281008884 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 931281008885 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 931281008886 substrate binding site [chemical binding]; other site 931281008887 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 931281008888 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 931281008889 putative active site [active] 931281008890 putative metal binding site [ion binding]; other site 931281008891 Penicillin amidase; Region: Penicil_amidase; pfam01804 931281008892 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 931281008893 Cephalosporin acylase (CA) belongs to a family of beta-lactam acylases that includes penicillin G acylase (PGA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_CA; cd01936 931281008894 active site 931281008895 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 931281008896 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 931281008897 Mor transcription activator family; Region: Mor; cl02360 931281008898 Protein of unknown function (DUF2589); Region: DUF2589; pfam11655 931281008899 Protein of unknown function (DUF2589); Region: DUF2589; pfam11655 931281008900 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 931281008901 Family of unknown function (DUF490); Region: DUF490; pfam04357 931281008902 Family of unknown function (DUF490); Region: DUF490; pfam04357 931281008903 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 931281008904 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 931281008905 Surface antigen; Region: Bac_surface_Ag; pfam01103 931281008906 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 931281008907 Coenzyme A binding pocket [chemical binding]; other site 931281008908 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 931281008909 putative catalytic site [active] 931281008910 putative phosphate binding site [ion binding]; other site 931281008911 active site 931281008912 metal binding site A [ion binding]; metal-binding site 931281008913 DNA binding site [nucleotide binding] 931281008914 putative AP binding site [nucleotide binding]; other site 931281008915 putative metal binding site B [ion binding]; other site 931281008916 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 931281008917 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 931281008918 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 931281008919 DNA binding residues [nucleotide binding] 931281008920 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 931281008921 putative heme binding pocket [chemical binding]; other site 931281008922 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 931281008923 Major Facilitator Superfamily; Region: MFS_1; pfam07690 931281008924 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 931281008925 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 931281008926 non-specific DNA binding site [nucleotide binding]; other site 931281008927 salt bridge; other site 931281008928 sequence-specific DNA binding site [nucleotide binding]; other site 931281008929 Cupin domain; Region: Cupin_2; pfam07883 931281008930 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 931281008931 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 931281008932 putative catalytic residue [active] 931281008933 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 931281008934 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 931281008935 putative NAD(P) binding site [chemical binding]; other site 931281008936 active site 931281008937 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 931281008938 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 931281008939 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 931281008940 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 931281008941 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 931281008942 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 931281008943 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 931281008944 Uncharacterized conserved protein [Function unknown]; Region: COG0393 931281008945 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 931281008946 EamA-like transporter family; Region: EamA; pfam00892 931281008947 aldolase II superfamily protein; Provisional; Region: PRK07044 931281008948 intersubunit interface [polypeptide binding]; other site 931281008949 active site 931281008950 Zn2+ binding site [ion binding]; other site 931281008951 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 931281008952 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 931281008953 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 931281008954 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 931281008955 putative active site [active] 931281008956 putative FMN binding site [chemical binding]; other site 931281008957 putative substrate binding site [chemical binding]; other site 931281008958 putative catalytic residue [active] 931281008959 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 931281008960 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 931281008961 non-specific DNA binding site [nucleotide binding]; other site 931281008962 salt bridge; other site 931281008963 sequence-specific DNA binding site [nucleotide binding]; other site 931281008964 Cupin domain; Region: Cupin_2; pfam07883 931281008965 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 931281008966 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 931281008967 azoreductase; Reviewed; Region: PRK00170 931281008968 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 931281008969 LysR family transcriptional regulator; Provisional; Region: PRK14997 931281008970 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281008971 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 931281008972 dimerization interface [polypeptide binding]; other site 931281008973 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 931281008974 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 931281008975 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 931281008976 Cache domain; Region: Cache_2; pfam08269 931281008977 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 931281008978 dimerization interface [polypeptide binding]; other site 931281008979 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 931281008980 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 931281008981 dimer interface [polypeptide binding]; other site 931281008982 putative CheW interface [polypeptide binding]; other site 931281008983 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 931281008984 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 931281008985 AAA domain; Region: AAA_28; pfam13521 931281008986 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 931281008987 putative active site [active] 931281008988 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 931281008989 Sulfatase; Region: Sulfatase; pfam00884 931281008990 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 931281008991 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 931281008992 G1 box; other site 931281008993 GTP/Mg2+ binding site [chemical binding]; other site 931281008994 Switch I region; other site 931281008995 Switch II region; other site 931281008996 G4 box; other site 931281008997 G5 box; other site 931281008998 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 931281008999 UreF; Region: UreF; pfam01730 931281009000 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 931281009001 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 931281009002 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 931281009003 dimer interface [polypeptide binding]; other site 931281009004 catalytic residues [active] 931281009005 urease subunit alpha; Reviewed; Region: ureC; PRK13207 931281009006 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 931281009007 subunit interactions [polypeptide binding]; other site 931281009008 active site 931281009009 flap region; other site 931281009010 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 931281009011 gamma-beta subunit interface [polypeptide binding]; other site 931281009012 alpha-beta subunit interface [polypeptide binding]; other site 931281009013 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 931281009014 alpha-gamma subunit interface [polypeptide binding]; other site 931281009015 beta-gamma subunit interface [polypeptide binding]; other site 931281009016 UreD urease accessory protein; Region: UreD; cl00530 931281009017 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 931281009018 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 931281009019 active site 931281009020 DNA binding site [nucleotide binding] 931281009021 Int/Topo IB signature motif; other site 931281009022 NnrS protein; Region: NnrS; pfam05940 931281009023 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 931281009024 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 931281009025 DEAD_2; Region: DEAD_2; pfam06733 931281009026 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 931281009027 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 931281009028 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 931281009029 D-galactonate transporter; Region: 2A0114; TIGR00893 931281009030 putative substrate translocation pore; other site 931281009031 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 931281009032 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 931281009033 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 931281009034 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 931281009035 galactarate dehydratase; Region: galactar-dH20; TIGR03248 931281009036 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 931281009037 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281009038 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281009039 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 931281009040 putative dimerization interface [polypeptide binding]; other site 931281009041 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281009042 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281009043 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 931281009044 putative dimerization interface [polypeptide binding]; other site 931281009045 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 931281009046 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 931281009047 putative active site pocket [active] 931281009048 metal binding site [ion binding]; metal-binding site 931281009049 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 931281009050 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 931281009051 putative substrate translocation pore; other site 931281009052 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 931281009053 DNA-binding site [nucleotide binding]; DNA binding site 931281009054 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 931281009055 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 931281009056 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 931281009057 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 931281009058 putative NAD(P) binding site [chemical binding]; other site 931281009059 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281009060 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281009061 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 931281009062 putative substrate binding pocket [chemical binding]; other site 931281009063 putative dimerization interface [polypeptide binding]; other site 931281009064 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 931281009065 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 931281009066 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 931281009067 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 931281009068 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 931281009069 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 931281009070 Helix-Turn-Helix DNA binding domain of MerR2-like transcription regulators; Region: HTH_MerR2; cd04769 931281009071 DNA binding residues [nucleotide binding] 931281009072 putative dimer interface [polypeptide binding]; other site 931281009073 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 931281009074 anti-sigma E factor; Provisional; Region: rseB; PRK09455 931281009075 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 931281009076 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 931281009077 NAD(P) binding site [chemical binding]; other site 931281009078 active site 931281009079 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 931281009080 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 931281009081 NAD(P) binding site [chemical binding]; other site 931281009082 active site 931281009083 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 931281009084 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 931281009085 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 931281009086 catalytic residue [active] 931281009087 Predicted dehydrogenase [General function prediction only]; Region: COG5322 931281009088 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 931281009089 polyketide beta-ketoacyl:acyl carrier protein synthase; Validated; Region: PRK07103 931281009090 active site 931281009091 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 931281009092 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 931281009093 dimer interface [polypeptide binding]; other site 931281009094 active site 931281009095 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 931281009096 active site 931281009097 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 931281009098 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 931281009099 dimer interface [polypeptide binding]; other site 931281009100 active site 931281009101 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 931281009102 potential frameshift: common BLAST hit: gi|26988782|ref|NP_744207.1| citrate transporter 931281009103 H+/citrate symporter [Energy production and conversion]; Region: CitM; cl17620 931281009104 H+/citrate symporter [Energy production and conversion]; Region: CitM; cl17620 931281009105 Citrate transporter; Region: CitMHS; pfam03600 931281009106 tricarballylate utilization protein B; Provisional; Region: PRK15033 931281009107 tricarballylate dehydrogenase; Validated; Region: PRK08274 931281009108 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 931281009109 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281009110 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 931281009111 putative dimerization interface [polypeptide binding]; other site 931281009112 universal stress protein UspE; Provisional; Region: PRK11175 931281009113 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 931281009114 Ligand Binding Site [chemical binding]; other site 931281009115 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 931281009116 Ligand Binding Site [chemical binding]; other site 931281009117 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 931281009118 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 931281009119 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 931281009120 active site 931281009121 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 931281009122 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 931281009123 Coenzyme A binding pocket [chemical binding]; other site 931281009124 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 931281009125 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 931281009126 DNA binding residues [nucleotide binding] 931281009127 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 931281009128 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 931281009129 PAS domain; Region: PAS_9; pfam13426 931281009130 putative active site [active] 931281009131 heme pocket [chemical binding]; other site 931281009132 SnoaL-like domain; Region: SnoaL_2; pfam12680 931281009133 short chain dehydrogenase; Provisional; Region: PRK07023 931281009134 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 931281009135 NAD(P) binding site [chemical binding]; other site 931281009136 active site 931281009137 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 931281009138 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 931281009139 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 931281009140 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 931281009141 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 931281009142 S-adenosylmethionine binding site [chemical binding]; other site 931281009143 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 931281009144 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 931281009145 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 931281009146 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 931281009147 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 931281009148 C factor cell-cell signaling protein; Provisional; Region: PRK09009 931281009149 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 931281009150 NADP binding site [chemical binding]; other site 931281009151 homodimer interface [polypeptide binding]; other site 931281009152 active site 931281009153 Predicted membrane protein [Function unknown]; Region: COG2323 931281009154 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 931281009155 intracellular protease, PfpI family; Region: PfpI; TIGR01382 931281009156 proposed catalytic triad [active] 931281009157 conserved cys residue [active] 931281009158 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 931281009159 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 931281009160 NAD binding site [chemical binding]; other site 931281009161 metal binding site [ion binding]; metal-binding site 931281009162 active site 931281009163 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 931281009164 dimerization interface [polypeptide binding]; other site 931281009165 putative DNA binding site [nucleotide binding]; other site 931281009166 putative Zn2+ binding site [ion binding]; other site 931281009167 arsenical pump membrane protein; Provisional; Region: PRK15445 931281009168 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 931281009169 transmembrane helices; other site 931281009170 Low molecular weight phosphatase family; Region: LMWPc; cd00115 931281009171 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 931281009172 active site 931281009173 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 931281009174 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 931281009175 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 931281009176 dimer interface [polypeptide binding]; other site 931281009177 phosphorylation site [posttranslational modification] 931281009178 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 931281009179 ATP binding site [chemical binding]; other site 931281009180 Mg2+ binding site [ion binding]; other site 931281009181 G-X-G motif; other site 931281009182 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 931281009183 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281009184 active site 931281009185 phosphorylation site [posttranslational modification] 931281009186 intermolecular recognition site; other site 931281009187 dimerization interface [polypeptide binding]; other site 931281009188 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 931281009189 DNA binding site [nucleotide binding] 931281009190 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 931281009191 TPR motif; other site 931281009192 binding surface 931281009193 short chain dehydrogenase; Provisional; Region: PRK09072 931281009194 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 931281009195 NAD(P) binding site [chemical binding]; other site 931281009196 active site 931281009197 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 931281009198 heme binding pocket [chemical binding]; other site 931281009199 heme ligand [chemical binding]; other site 931281009200 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 931281009201 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_3; cd05914 931281009202 acyl-activating enzyme (AAE) consensus motif; other site 931281009203 putative AMP binding site [chemical binding]; other site 931281009204 putative active site [active] 931281009205 putative CoA binding site [chemical binding]; other site 931281009206 Thermostable hemolysin; Region: T_hemolysin; pfam12261 931281009207 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 931281009208 putative catalytic site [active] 931281009209 putative phosphate binding site [ion binding]; other site 931281009210 active site 931281009211 metal binding site A [ion binding]; metal-binding site 931281009212 DNA binding site [nucleotide binding] 931281009213 putative AP binding site [nucleotide binding]; other site 931281009214 putative metal binding site B [ion binding]; other site 931281009215 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 931281009216 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 931281009217 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 931281009218 metal binding site [ion binding]; metal-binding site 931281009219 putative dimer interface [polypeptide binding]; other site 931281009220 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 931281009221 metabolite-proton symporter; Region: 2A0106; TIGR00883 931281009222 putative substrate translocation pore; other site 931281009223 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 931281009224 trimer interface [polypeptide binding]; other site 931281009225 eyelet of channel; other site 931281009226 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 931281009227 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281009228 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281009229 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 931281009230 dimerization interface [polypeptide binding]; other site 931281009231 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 931281009232 catalytic triad [active] 931281009233 dimer interface [polypeptide binding]; other site 931281009234 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 931281009235 methionine synthase; Provisional; Region: PRK01207 931281009236 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 931281009237 substrate binding site [chemical binding]; other site 931281009238 THF binding site; other site 931281009239 zinc-binding site [ion binding]; other site 931281009240 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 931281009241 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 931281009242 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281009243 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 931281009244 putative dimerization interface [polypeptide binding]; other site 931281009245 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281009246 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281009247 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 931281009248 putative dimerization interface [polypeptide binding]; other site 931281009249 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 931281009250 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 931281009251 NAD(P) binding site [chemical binding]; other site 931281009252 catalytic residues [active] 931281009253 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 931281009254 Membrane dipeptidase (Peptidase family M19); Region: Peptidase_M19; pfam01244 931281009255 active site 931281009256 BCCT family transporter; Region: BCCT; pfam02028 931281009257 Protein of unknown function (DUF3726); Region: DUF3726; pfam12525 931281009258 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 931281009259 homotrimer interaction site [polypeptide binding]; other site 931281009260 putative active site [active] 931281009261 Uncharacterized conserved protein [Function unknown]; Region: COG2308 931281009262 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 931281009263 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 931281009264 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 931281009265 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 931281009266 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 931281009267 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 931281009268 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 931281009269 GntP family permease; Region: GntP_permease; pfam02447 931281009270 fructuronate transporter; Provisional; Region: PRK10034; cl15264 931281009271 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 931281009272 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 931281009273 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 931281009274 catalytic residue [active] 931281009275 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 931281009276 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281009277 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 931281009278 dimerization interface [polypeptide binding]; other site 931281009279 substrate binding pocket [chemical binding]; other site 931281009280 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 931281009281 PAS domain S-box; Region: sensory_box; TIGR00229 931281009282 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 931281009283 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 931281009284 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 931281009285 dimer interface [polypeptide binding]; other site 931281009286 phosphorylation site [posttranslational modification] 931281009287 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 931281009288 ATP binding site [chemical binding]; other site 931281009289 Mg2+ binding site [ion binding]; other site 931281009290 G-X-G motif; other site 931281009291 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 931281009292 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281009293 active site 931281009294 phosphorylation site [posttranslational modification] 931281009295 intermolecular recognition site; other site 931281009296 dimerization interface [polypeptide binding]; other site 931281009297 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 931281009298 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 931281009299 putative active site [active] 931281009300 metal binding site [ion binding]; metal-binding site 931281009301 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 931281009302 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II and Staphylococcus aureus AldA1 (SACOL0154)-like; Region: ALDH_ACDHII_AcoD-like; cd07559 931281009303 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 931281009304 NAD(P) binding site [chemical binding]; other site 931281009305 catalytic residues [active] 931281009306 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 931281009307 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 931281009308 dimer interface [polypeptide binding]; other site 931281009309 Trp docking motif [polypeptide binding]; other site 931281009310 active site 931281009311 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 931281009312 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 931281009313 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 931281009314 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281009315 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 931281009316 substrate binding pocket [chemical binding]; other site 931281009317 membrane-bound complex binding site; other site 931281009318 hinge residues; other site 931281009319 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 931281009320 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 931281009321 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 931281009322 dimer interface [polypeptide binding]; other site 931281009323 Trp docking motif [polypeptide binding]; other site 931281009324 active site 931281009325 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 931281009326 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 931281009327 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 931281009328 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 931281009329 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 931281009330 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 931281009331 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 931281009332 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281009333 active site 931281009334 phosphorylation site [posttranslational modification] 931281009335 intermolecular recognition site; other site 931281009336 dimerization interface [polypeptide binding]; other site 931281009337 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 931281009338 DNA binding residues [nucleotide binding] 931281009339 dimerization interface [polypeptide binding]; other site 931281009340 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 931281009341 dimerization interface [polypeptide binding]; other site 931281009342 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 931281009343 Histidine kinase; Region: HisKA_3; pfam07730 931281009344 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 931281009345 ATP binding site [chemical binding]; other site 931281009346 Mg2+ binding site [ion binding]; other site 931281009347 G-X-G motif; other site 931281009348 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 931281009349 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 931281009350 ligand binding site [chemical binding]; other site 931281009351 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 931281009352 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 931281009353 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 931281009354 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 931281009355 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 931281009356 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 931281009357 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281009358 Walker A/P-loop; other site 931281009359 ATP binding site [chemical binding]; other site 931281009360 Q-loop/lid; other site 931281009361 ABC transporter signature motif; other site 931281009362 Walker B; other site 931281009363 D-loop; other site 931281009364 H-loop/switch region; other site 931281009365 alcohol ABC transporter, permease protein; Region: phenyl_ABC_PedC; TIGR03861 931281009366 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 931281009367 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 931281009368 active site residue [active] 931281009369 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 931281009370 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281009371 active site 931281009372 phosphorylation site [posttranslational modification] 931281009373 intermolecular recognition site; other site 931281009374 dimerization interface [polypeptide binding]; other site 931281009375 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 931281009376 DNA binding residues [nucleotide binding] 931281009377 dimerization interface [polypeptide binding]; other site 931281009378 PAS fold; Region: PAS; pfam00989 931281009379 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 931281009380 putative active site [active] 931281009381 heme pocket [chemical binding]; other site 931281009382 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 931281009383 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 931281009384 dimer interface [polypeptide binding]; other site 931281009385 phosphorylation site [posttranslational modification] 931281009386 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 931281009387 ATP binding site [chemical binding]; other site 931281009388 Mg2+ binding site [ion binding]; other site 931281009389 G-X-G motif; other site 931281009390 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 931281009391 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281009392 active site 931281009393 phosphorylation site [posttranslational modification] 931281009394 intermolecular recognition site; other site 931281009395 dimerization interface [polypeptide binding]; other site 931281009396 Uncharacterized conserved protein [Function unknown]; Region: COG3287 931281009397 FIST N domain; Region: FIST; pfam08495 931281009398 FIST C domain; Region: FIST_C; pfam10442 931281009399 Gram-negative porin; Region: Porin_4; pfam13609 931281009400 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 931281009401 active site 931281009402 motif I; other site 931281009403 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 931281009404 motif II; other site 931281009405 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14263 931281009406 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 931281009407 Walker A/P-loop; other site 931281009408 ATP binding site [chemical binding]; other site 931281009409 Q-loop/lid; other site 931281009410 ABC transporter signature motif; other site 931281009411 Walker B; other site 931281009412 D-loop; other site 931281009413 H-loop/switch region; other site 931281009414 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 931281009415 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 931281009416 dimer interface [polypeptide binding]; other site 931281009417 conserved gate region; other site 931281009418 putative PBP binding loops; other site 931281009419 ABC-ATPase subunit interface; other site 931281009420 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 931281009421 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 931281009422 dimer interface [polypeptide binding]; other site 931281009423 conserved gate region; other site 931281009424 putative PBP binding loops; other site 931281009425 ABC-ATPase subunit interface; other site 931281009426 phosphate ABC transporter, phosphate-binding protein; Region: 3a0107s03; TIGR00975 931281009427 MAPEG family; Region: MAPEG; pfam01124 931281009428 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 931281009429 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 931281009430 non-specific DNA binding site [nucleotide binding]; other site 931281009431 salt bridge; other site 931281009432 sequence-specific DNA binding site [nucleotide binding]; other site 931281009433 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 931281009434 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 931281009435 D-galactonate transporter; Region: 2A0114; TIGR00893 931281009436 putative substrate translocation pore; other site 931281009437 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 931281009438 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 931281009439 putative active site [active] 931281009440 metal binding site [ion binding]; metal-binding site 931281009441 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281009442 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281009443 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 931281009444 dimerization interface [polypeptide binding]; other site 931281009445 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 931281009446 Ligand Binding Site [chemical binding]; other site 931281009447 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 931281009448 Ligand Binding Site [chemical binding]; other site 931281009449 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 931281009450 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281009451 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 931281009452 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 931281009453 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 931281009454 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 931281009455 putative substrate translocation pore; other site 931281009456 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 931281009457 magnesium-transporting ATPase; Provisional; Region: PRK15122 931281009458 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 931281009459 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 931281009460 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 931281009461 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 931281009462 Soluble P-type ATPase [General function prediction only]; Region: COG4087 931281009463 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 931281009464 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 931281009465 dimerization interface [polypeptide binding]; other site 931281009466 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 931281009467 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 931281009468 dimer interface [polypeptide binding]; other site 931281009469 putative CheW interface [polypeptide binding]; other site 931281009470 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 931281009471 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 931281009472 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281009473 DNA-binding site [nucleotide binding]; DNA binding site 931281009474 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 931281009475 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281009476 homodimer interface [polypeptide binding]; other site 931281009477 catalytic residue [active] 931281009478 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 931281009479 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 931281009480 catalytic loop [active] 931281009481 iron binding site [ion binding]; other site 931281009482 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 931281009483 FAD binding pocket [chemical binding]; other site 931281009484 FAD binding motif [chemical binding]; other site 931281009485 phosphate binding motif [ion binding]; other site 931281009486 beta-alpha-beta structure motif; other site 931281009487 NAD binding pocket [chemical binding]; other site 931281009488 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 931281009489 active site 931281009490 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 931281009491 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 931281009492 Coenzyme A binding pocket [chemical binding]; other site 931281009493 PAS domain; Region: PAS_9; pfam13426 931281009494 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 931281009495 putative active site [active] 931281009496 heme pocket [chemical binding]; other site 931281009497 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 931281009498 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 931281009499 dimer interface [polypeptide binding]; other site 931281009500 phosphorylation site [posttranslational modification] 931281009501 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 931281009502 ATP binding site [chemical binding]; other site 931281009503 Mg2+ binding site [ion binding]; other site 931281009504 G-X-G motif; other site 931281009505 Putative glucoamylase; Region: Glycoamylase; pfam10091 931281009506 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 931281009507 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 931281009508 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 931281009509 Protein of unknown function, DUF608; Region: DUF608; pfam04685 931281009510 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 931281009511 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 931281009512 ligand binding site [chemical binding]; other site 931281009513 flexible hinge region; other site 931281009514 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 931281009515 non-specific DNA interactions [nucleotide binding]; other site 931281009516 DNA binding site [nucleotide binding] 931281009517 sequence specific DNA binding site [nucleotide binding]; other site 931281009518 putative cAMP binding site [chemical binding]; other site 931281009519 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 931281009520 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 931281009521 ANTAR domain; Region: ANTAR; pfam03861 931281009522 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 931281009523 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 931281009524 ligand binding site [chemical binding]; other site 931281009525 regulator interaction site; other site 931281009526 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 931281009527 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 931281009528 Walker A motif; other site 931281009529 ATP binding site [chemical binding]; other site 931281009530 Walker B motif; other site 931281009531 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 931281009532 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 931281009533 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 931281009534 multimer interface [polypeptide binding]; other site 931281009535 active site 931281009536 catalytic triad [active] 931281009537 dimer interface [polypeptide binding]; other site 931281009538 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 931281009539 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 931281009540 dimer interface [polypeptide binding]; other site 931281009541 active site 931281009542 catalytic residue [active] 931281009543 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 931281009544 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 931281009545 binding surface 931281009546 TPR motif; other site 931281009547 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 931281009548 endo-1,4-D-glucanase; Provisional; Region: PRK11097 931281009549 cellulose synthase regulator protein; Provisional; Region: PRK11114 931281009550 potential frameshift: common BLAST hit: gi|148547357|ref|YP_001267459.1| cellulose synthase catalytic subunit 931281009551 PilZ domain; Region: PilZ; pfam07238 931281009552 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 931281009553 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 931281009554 DXD motif; other site 931281009555 YhjQ protein; Region: YhjQ; pfam06564 931281009556 Protein of unknown function (DUF2629); Region: DUF2629; pfam10945 931281009557 cellulose synthase operon protein YhjU; Region: cellulose_yhjU; TIGR03368 931281009558 Protein of unknown function (DUF2819); Region: DUF2819; cl17862 931281009559 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 931281009560 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 931281009561 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281009562 Walker A/P-loop; other site 931281009563 ATP binding site [chemical binding]; other site 931281009564 Q-loop/lid; other site 931281009565 ABC transporter signature motif; other site 931281009566 Walker B; other site 931281009567 D-loop; other site 931281009568 H-loop/switch region; other site 931281009569 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 931281009570 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 931281009571 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 931281009572 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 931281009573 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 931281009574 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 931281009575 Protein of unknown function (DUF770); Region: DUF770; pfam05591 931281009576 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 931281009577 Protein of unknown function (DUF877); Region: DUF877; pfam05943 931281009578 Rubella membrane glycoprotein E2; Region: Rubella_E2; pfam05749 931281009579 Protein of unknown function (DUF3303); Region: DUF3303; pfam11746 931281009580 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 931281009581 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 931281009582 Bacterial transcriptional regulator; Region: IclR; pfam01614 931281009583 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 931281009584 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 931281009585 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 931281009586 shikimate binding site; other site 931281009587 NAD(P) binding site [chemical binding]; other site 931281009588 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12843 931281009589 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 931281009590 NIPSNAP; Region: NIPSNAP; pfam07978 931281009591 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 931281009592 Predicted oxidoreductase [General function prediction only]; Region: COG3573 931281009593 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 931281009594 D-galactonate transporter; Region: 2A0114; TIGR00893 931281009595 putative substrate translocation pore; other site 931281009596 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 931281009597 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 931281009598 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 931281009599 Transcriptional regulator [Transcription]; Region: IclR; COG1414 931281009600 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 931281009601 Bacterial transcriptional regulator; Region: IclR; pfam01614 931281009602 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 931281009603 Predicted oxidoreductase [General function prediction only]; Region: COG3573 931281009604 Cache domain; Region: Cache_1; pfam02743 931281009605 GAF domain; Region: GAF_2; pfam13185 931281009606 GAF domain; Region: GAF_3; pfam13492 931281009607 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 931281009608 tetracycline repressor protein TetR; Provisional; Region: PRK13756 931281009609 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281009610 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 931281009611 Walker A/P-loop; other site 931281009612 ATP binding site [chemical binding]; other site 931281009613 Q-loop/lid; other site 931281009614 ABC transporter signature motif; other site 931281009615 Walker B; other site 931281009616 D-loop; other site 931281009617 H-loop/switch region; other site 931281009618 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 931281009619 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281009620 Walker A/P-loop; other site 931281009621 ATP binding site [chemical binding]; other site 931281009622 Q-loop/lid; other site 931281009623 ABC transporter signature motif; other site 931281009624 Walker B; other site 931281009625 D-loop; other site 931281009626 H-loop/switch region; other site 931281009627 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 931281009628 ABC-ATPase subunit interface; other site 931281009629 dimer interface [polypeptide binding]; other site 931281009630 putative PBP binding regions; other site 931281009631 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 931281009632 ABC-ATPase subunit interface; other site 931281009633 dimer interface [polypeptide binding]; other site 931281009634 putative PBP binding regions; other site 931281009635 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 931281009636 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 931281009637 Walker A/P-loop; other site 931281009638 ATP binding site [chemical binding]; other site 931281009639 Q-loop/lid; other site 931281009640 ABC transporter signature motif; other site 931281009641 Walker B; other site 931281009642 D-loop; other site 931281009643 H-loop/switch region; other site 931281009644 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 931281009645 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 931281009646 putative ligand binding residues [chemical binding]; other site 931281009647 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 931281009648 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 931281009649 N-terminal plug; other site 931281009650 ligand-binding site [chemical binding]; other site 931281009651 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 931281009652 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 931281009653 NAD(P) binding site [chemical binding]; other site 931281009654 catalytic residues [active] 931281009655 putative aminotransferase; Provisional; Region: PRK12403 931281009656 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 931281009657 inhibitor-cofactor binding pocket; inhibition site 931281009658 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281009659 catalytic residue [active] 931281009660 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 931281009661 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 931281009662 DNA binding residues [nucleotide binding] 931281009663 dimerization interface [polypeptide binding]; other site 931281009664 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 931281009665 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 931281009666 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 931281009667 dimer interface [polypeptide binding]; other site 931281009668 NADP binding site [chemical binding]; other site 931281009669 catalytic residues [active] 931281009670 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 931281009671 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 931281009672 active site 931281009673 putative substrate binding pocket [chemical binding]; other site 931281009674 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 931281009675 Coenzyme A binding pocket [chemical binding]; other site 931281009676 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 931281009677 heme binding pocket [chemical binding]; other site 931281009678 heme ligand [chemical binding]; other site 931281009679 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 931281009680 hypothetical protein; Provisional; Region: PRK10649 931281009681 Sulfatase; Region: Sulfatase; pfam00884 931281009682 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 931281009683 Protein of unknown function (DUF330); Region: DUF330; pfam03886 931281009684 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 931281009685 mce related protein; Region: MCE; pfam02470 931281009686 mce related protein; Region: MCE; pfam02470 931281009687 mce related protein; Region: MCE; pfam02470 931281009688 Paraquat-inducible protein A; Region: PqiA; pfam04403 931281009689 Paraquat-inducible protein A; Region: PqiA; pfam04403 931281009690 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281009691 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281009692 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 931281009693 putative substrate binding pocket [chemical binding]; other site 931281009694 dimerization interface [polypeptide binding]; other site 931281009695 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 931281009696 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 931281009697 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 931281009698 putative substrate translocation pore; other site 931281009699 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 931281009700 dimer interface [polypeptide binding]; other site 931281009701 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 931281009702 metal binding site [ion binding]; metal-binding site 931281009703 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 931281009704 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 931281009705 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 931281009706 Leucine-rich repeats; other site 931281009707 Substrate binding site [chemical binding]; other site 931281009708 Leucine rich repeat; Region: LRR_8; pfam13855 931281009709 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 931281009710 Family description; Region: UvrD_C_2; pfam13538 931281009711 Pirin-related protein [General function prediction only]; Region: COG1741 931281009712 Pirin; Region: Pirin; pfam02678 931281009713 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 931281009714 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 931281009715 acyl-activating enzyme (AAE) consensus motif; other site 931281009716 AMP binding site [chemical binding]; other site 931281009717 Acyltransferase family; Region: Acyl_transf_3; pfam01757 931281009718 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 931281009719 Isochorismatase family; Region: Isochorismatase; pfam00857 931281009720 catalytic triad [active] 931281009721 conserved cis-peptide bond; other site 931281009722 PAS domain S-box; Region: sensory_box; TIGR00229 931281009723 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 931281009724 putative active site [active] 931281009725 heme pocket [chemical binding]; other site 931281009726 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 931281009727 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281009728 metal binding site [ion binding]; metal-binding site 931281009729 active site 931281009730 I-site; other site 931281009731 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 931281009732 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 931281009733 Chromate transporter; Region: Chromate_transp; pfam02417 931281009734 Methyltransferase domain; Region: Methyltransf_23; pfam13489 931281009735 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 931281009736 S-adenosylmethionine binding site [chemical binding]; other site 931281009737 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 931281009738 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 931281009739 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 931281009740 dimer interface [polypeptide binding]; other site 931281009741 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 931281009742 active site 931281009743 Fe binding site [ion binding]; other site 931281009744 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 931281009745 metabolite-proton symporter; Region: 2A0106; TIGR00883 931281009746 putative substrate translocation pore; other site 931281009747 tyrosine decarboxylase; Region: PLN02880 931281009748 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 931281009749 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 931281009750 catalytic residue [active] 931281009751 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281009752 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281009753 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 931281009754 substrate binding pocket [chemical binding]; other site 931281009755 dimerization interface [polypeptide binding]; other site 931281009756 hypothetical protein; Provisional; Region: PRK12378 931281009757 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 931281009758 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 931281009759 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 931281009760 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 931281009761 putative substrate translocation pore; other site 931281009762 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 931281009763 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281009764 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 931281009765 dimerization interface [polypeptide binding]; other site 931281009766 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 931281009767 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 931281009768 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 931281009769 S-adenosylmethionine binding site [chemical binding]; other site 931281009770 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 931281009771 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 931281009772 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281009773 DNA-binding site [nucleotide binding]; DNA binding site 931281009774 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 931281009775 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281009776 homodimer interface [polypeptide binding]; other site 931281009777 catalytic residue [active] 931281009778 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 931281009779 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 931281009780 active site 931281009781 Zn binding site [ion binding]; other site 931281009782 allantoate amidohydrolase; Reviewed; Region: PRK12893 931281009783 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 931281009784 active site 931281009785 metal binding site [ion binding]; metal-binding site 931281009786 dimer interface [polypeptide binding]; other site 931281009787 metabolite-proton symporter; Region: 2A0106; TIGR00883 931281009788 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 931281009789 putative substrate translocation pore; other site 931281009790 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281009791 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281009792 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 931281009793 dimerization interface [polypeptide binding]; other site 931281009794 WYL domain; Region: WYL; pfam13280 931281009795 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 931281009796 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 931281009797 putative NAD(P) binding site [chemical binding]; other site 931281009798 putative active site [active] 931281009799 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281009800 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 931281009801 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 931281009802 dimerization interface [polypeptide binding]; other site 931281009803 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 931281009804 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 931281009805 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 931281009806 putative C-terminal domain interface [polypeptide binding]; other site 931281009807 putative GSH binding site (G-site) [chemical binding]; other site 931281009808 putative dimer interface [polypeptide binding]; other site 931281009809 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 931281009810 putative N-terminal domain interface [polypeptide binding]; other site 931281009811 putative dimer interface [polypeptide binding]; other site 931281009812 putative substrate binding pocket (H-site) [chemical binding]; other site 931281009813 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 931281009814 Major Facilitator Superfamily; Region: MFS_1; pfam07690 931281009815 putative substrate translocation pore; other site 931281009816 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281009817 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_10; cd08480 931281009818 putative effector binding pocket; other site 931281009819 putative dimerization interface [polypeptide binding]; other site 931281009820 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 931281009821 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 931281009822 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 931281009823 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 931281009824 active site 931281009825 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 931281009826 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 931281009827 dimerization interface [polypeptide binding]; other site 931281009828 NAD binding site [chemical binding]; other site 931281009829 ligand binding site [chemical binding]; other site 931281009830 catalytic site [active] 931281009831 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 931281009832 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 931281009833 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 931281009834 homodimer interface [polypeptide binding]; other site 931281009835 substrate-cofactor binding pocket; other site 931281009836 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281009837 catalytic residue [active] 931281009838 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 931281009839 Predicted ATPase [General function prediction only]; Region: COG4637 931281009840 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281009841 Walker A/P-loop; other site 931281009842 ATP binding site [chemical binding]; other site 931281009843 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 931281009844 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 931281009845 Zn2+ binding site [ion binding]; other site 931281009846 Mg2+ binding site [ion binding]; other site 931281009847 Secretin and TonB N terminus short domain; Region: STN; smart00965 931281009848 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 931281009849 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 931281009850 N-terminal plug; other site 931281009851 ligand-binding site [chemical binding]; other site 931281009852 glutaminase; Provisional; Region: PRK00971 931281009853 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 931281009854 benzoate transport; Region: 2A0115; TIGR00895 931281009855 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 931281009856 putative substrate translocation pore; other site 931281009857 protocatechuate 4,5-dioxygenase; Provisional; Region: PRK13367 931281009858 The N-terminal domain of the Class III extradiol dioxygenase, Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate; Region: Gallate_Doxase_N; cd07950 931281009859 putative active site [active] 931281009860 Fe(II) binding site [ion binding]; other site 931281009861 putative dimer interface [polypeptide binding]; other site 931281009862 The C-terminal domain of Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate; Region: Gallate_dioxygenase_C; cd07923 931281009863 putative dimer interface [polypeptide binding]; other site 931281009864 putative N- and C-terminal domain interface [polypeptide binding]; other site 931281009865 outer membrane porin, OprD family; Region: OprD; pfam03573 931281009866 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281009867 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281009868 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 931281009869 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281009870 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 931281009871 putative dimerization interface [polypeptide binding]; other site 931281009872 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 931281009873 hypothetical protein; Provisional; Region: PRK09262 931281009874 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 931281009875 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 931281009876 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 931281009877 homodecamer interface [polypeptide binding]; other site 931281009878 GTP cyclohydrolase I; Provisional; Region: PLN03044 931281009879 active site 931281009880 putative catalytic site residues [active] 931281009881 zinc binding site [ion binding]; other site 931281009882 GTP-CH-I/GFRP interaction surface; other site 931281009883 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 931281009884 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 931281009885 NAD(P) binding site [chemical binding]; other site 931281009886 active site 931281009887 Predicted small integral membrane protein (DUF2165); Region: DUF2165; cl02290 931281009888 GAF domain; Region: GAF; pfam01590 931281009889 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 931281009890 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 931281009891 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281009892 metal binding site [ion binding]; metal-binding site 931281009893 active site 931281009894 I-site; other site 931281009895 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 931281009896 active site 1 [active] 931281009897 dimer interface [polypeptide binding]; other site 931281009898 hexamer interface [polypeptide binding]; other site 931281009899 active site 2 [active] 931281009900 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 931281009901 classical (c) SDRs; Region: SDR_c; cd05233 931281009902 NAD(P) binding site [chemical binding]; other site 931281009903 active site 931281009904 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281009905 LysR family transcriptional regulator; Provisional; Region: PRK14997 931281009906 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 931281009907 putative effector binding pocket; other site 931281009908 dimerization interface [polypeptide binding]; other site 931281009909 potential frameshift: common BLAST hit: gi|170721314|ref|YP_001749002.1| glycosyltransferase 931281009910 N-terminal domain of glycoside hydrolase family 94 and related domains; Region: GH94N_like; cl17067 931281009911 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 931281009912 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 931281009913 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 931281009914 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 931281009915 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 931281009916 Zn2+ binding site [ion binding]; other site 931281009917 Mg2+ binding site [ion binding]; other site 931281009918 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 931281009919 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 931281009920 DNA binding residues [nucleotide binding] 931281009921 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281009922 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281009923 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 931281009924 putative effector binding pocket; other site 931281009925 putative dimerization interface [polypeptide binding]; other site 931281009926 SnoaL-like domain; Region: SnoaL_2; pfam12680 931281009927 short chain dehydrogenase; Provisional; Region: PRK06523 931281009928 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 931281009929 NAD(P) binding site [chemical binding]; other site 931281009930 active site 931281009931 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 931281009932 Terminase-like family; Region: Terminase_6; pfam03237 931281009933 Uncharacterized conserved protein (DUF2280); Region: DUF2280; cl02353 931281009934 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 931281009935 potential frameshift: common BLAST hit: gi|167034469|ref|YP_001669700.1| integrase family protein 931281009936 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 931281009937 active site 931281009938 DNA binding site [nucleotide binding] 931281009939 Int/Topo IB signature motif; other site 931281009940 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 931281009941 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 931281009942 DNA binding residues [nucleotide binding] 931281009943 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 931281009944 IHF dimer interface [polypeptide binding]; other site 931281009945 IHF - DNA interface [nucleotide binding]; other site 931281009946 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 931281009947 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 931281009948 putative tRNA-binding site [nucleotide binding]; other site 931281009949 B3/4 domain; Region: B3_4; pfam03483 931281009950 tRNA synthetase B5 domain; Region: B5; smart00874 931281009951 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 931281009952 dimer interface [polypeptide binding]; other site 931281009953 motif 1; other site 931281009954 motif 3; other site 931281009955 motif 2; other site 931281009956 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 931281009957 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 931281009958 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 931281009959 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 931281009960 dimer interface [polypeptide binding]; other site 931281009961 motif 1; other site 931281009962 active site 931281009963 motif 2; other site 931281009964 motif 3; other site 931281009965 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 931281009966 23S rRNA binding site [nucleotide binding]; other site 931281009967 L21 binding site [polypeptide binding]; other site 931281009968 L13 binding site [polypeptide binding]; other site 931281009969 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 931281009970 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 931281009971 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 931281009972 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 931281009973 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 931281009974 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 931281009975 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 931281009976 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 931281009977 active site 931281009978 dimer interface [polypeptide binding]; other site 931281009979 motif 1; other site 931281009980 motif 2; other site 931281009981 motif 3; other site 931281009982 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 931281009983 anticodon binding site; other site 931281009984 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 931281009985 DNA-binding site [nucleotide binding]; DNA binding site 931281009986 RNA-binding motif; other site 931281009987 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 931281009988 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 931281009989 active site 931281009990 tetramer interface [polypeptide binding]; other site 931281009991 D-ribose pyranase; Provisional; Region: PRK11797 931281009992 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 931281009993 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 931281009994 substrate binding site [chemical binding]; other site 931281009995 dimer interface [polypeptide binding]; other site 931281009996 ATP binding site [chemical binding]; other site 931281009997 Transcriptional regulators [Transcription]; Region: PurR; COG1609 931281009998 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 931281009999 DNA binding site [nucleotide binding] 931281010000 domain linker motif; other site 931281010001 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 931281010002 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 931281010003 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 931281010004 TM-ABC transporter signature motif; other site 931281010005 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 931281010006 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 931281010007 Walker A/P-loop; other site 931281010008 ATP binding site [chemical binding]; other site 931281010009 Q-loop/lid; other site 931281010010 ABC transporter signature motif; other site 931281010011 Walker B; other site 931281010012 D-loop; other site 931281010013 H-loop/switch region; other site 931281010014 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 931281010015 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 931281010016 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 931281010017 ligand binding site [chemical binding]; other site 931281010018 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cd00411 931281010019 homodimer interface [polypeptide binding]; other site 931281010020 active site 931281010021 PAS domain S-box; Region: sensory_box; TIGR00229 931281010022 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 931281010023 putative active site [active] 931281010024 heme pocket [chemical binding]; other site 931281010025 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 931281010026 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 931281010027 Walker A motif; other site 931281010028 ATP binding site [chemical binding]; other site 931281010029 Walker B motif; other site 931281010030 arginine finger; other site 931281010031 cyanate hydratase; Validated; Region: PRK02866 931281010032 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 931281010033 oligomer interface [polypeptide binding]; other site 931281010034 active site 931281010035 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 931281010036 Protein of unknown function (DUF1654); Region: DUF1654; pfam07867 931281010037 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 931281010038 DNA-specific endonuclease I; Provisional; Region: PRK15137 931281010039 HD domain; Region: HD_4; pfam13328 931281010040 Sporulation related domain; Region: SPOR; pfam05036 931281010041 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 931281010042 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 931281010043 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39A; cd02549 931281010044 putative active site [active] 931281010045 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 931281010046 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 931281010047 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281010048 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 931281010049 putative dimerization interface [polypeptide binding]; other site 931281010050 serine/threonine transporter SstT; Provisional; Region: PRK13628 931281010051 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 931281010052 hypothetical protein; Provisional; Region: PRK11239 931281010053 Protein of unknown function, DUF480; Region: DUF480; cl01209 931281010054 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 931281010055 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 931281010056 catalytic residue [active] 931281010057 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 931281010058 catalytic residues [active] 931281010059 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 931281010060 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 931281010061 peroxiredoxin; Region: AhpC; TIGR03137 931281010062 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 931281010063 dimer interface [polypeptide binding]; other site 931281010064 decamer (pentamer of dimers) interface [polypeptide binding]; other site 931281010065 catalytic triad [active] 931281010066 peroxidatic and resolving cysteines [active] 931281010067 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 931281010068 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 931281010069 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 931281010070 FAD binding site [chemical binding]; other site 931281010071 substrate binding site [chemical binding]; other site 931281010072 catalytic base [active] 931281010073 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 931281010074 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281010075 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 931281010076 substrate binding pocket [chemical binding]; other site 931281010077 dimerization interface [polypeptide binding]; other site 931281010078 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 931281010079 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 931281010080 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 931281010081 catalytic residue [active] 931281010082 RES domain; Region: RES; pfam08808 931281010083 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 931281010084 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 931281010085 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 931281010086 FMN binding site [chemical binding]; other site 931281010087 dimer interface [polypeptide binding]; other site 931281010088 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281010089 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281010090 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 931281010091 putative effector binding pocket; other site 931281010092 dimerization interface [polypeptide binding]; other site 931281010093 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 931281010094 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 931281010095 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281010096 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281010097 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 931281010098 putative arabinose transporter; Provisional; Region: PRK03545 931281010099 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 931281010100 putative substrate translocation pore; other site 931281010101 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 931281010102 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 931281010103 putative NAD(P) binding site [chemical binding]; other site 931281010104 putative substrate binding site [chemical binding]; other site 931281010105 catalytic Zn binding site [ion binding]; other site 931281010106 structural Zn binding site [ion binding]; other site 931281010107 dimer interface [polypeptide binding]; other site 931281010108 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 931281010109 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 931281010110 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281010111 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281010112 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 931281010113 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 931281010114 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 931281010115 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 931281010116 RNA polymerase sigma factor; Provisional; Region: PRK12525 931281010117 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 931281010118 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 931281010119 DNA binding residues [nucleotide binding] 931281010120 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 931281010121 FecR protein; Region: FecR; pfam04773 931281010122 Secretin and TonB N terminus short domain; Region: STN; smart00965 931281010123 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 931281010124 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 931281010125 N-terminal plug; other site 931281010126 ligand-binding site [chemical binding]; other site 931281010127 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 931281010128 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 931281010129 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 931281010130 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 931281010131 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 931281010132 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 931281010133 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 931281010134 Coenzyme A binding pocket [chemical binding]; other site 931281010135 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 931281010136 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 931281010137 N-terminal plug; other site 931281010138 ligand-binding site [chemical binding]; other site 931281010139 Predicted membrane protein [Function unknown]; Region: COG3503 931281010140 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 931281010141 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 931281010142 putative ligand binding residues [chemical binding]; other site 931281010143 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 931281010144 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 931281010145 dimer interface [polypeptide binding]; other site 931281010146 putative PBP binding regions; other site 931281010147 ABC-ATPase subunit interface; other site 931281010148 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 931281010149 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 931281010150 Walker A/P-loop; other site 931281010151 ATP binding site [chemical binding]; other site 931281010152 Q-loop/lid; other site 931281010153 ABC transporter signature motif; other site 931281010154 Walker B; other site 931281010155 D-loop; other site 931281010156 H-loop/switch region; other site 931281010157 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 931281010158 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 931281010159 Coenzyme A binding pocket [chemical binding]; other site 931281010160 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 931281010161 Cache domain; Region: Cache_1; pfam02743 931281010162 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 931281010163 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281010164 metal binding site [ion binding]; metal-binding site 931281010165 active site 931281010166 I-site; other site 931281010167 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 931281010168 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 931281010169 P-loop; other site 931281010170 Magnesium ion binding site [ion binding]; other site 931281010171 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 931281010172 Magnesium ion binding site [ion binding]; other site 931281010173 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 931281010174 metabolite-proton symporter; Region: 2A0106; TIGR00883 931281010175 putative substrate translocation pore; other site 931281010176 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 931281010177 Dehydroquinase class II; Region: DHquinase_II; pfam01220 931281010178 trimer interface [polypeptide binding]; other site 931281010179 active site 931281010180 dimer interface [polypeptide binding]; other site 931281010181 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 931281010182 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 931281010183 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 931281010184 shikimate binding site; other site 931281010185 NAD(P) binding site [chemical binding]; other site 931281010186 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 931281010187 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 931281010188 catalytic residues [active] 931281010189 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 931281010190 osmolarity response regulator; Provisional; Region: ompR; PRK09468 931281010191 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281010192 active site 931281010193 phosphorylation site [posttranslational modification] 931281010194 intermolecular recognition site; other site 931281010195 dimerization interface [polypeptide binding]; other site 931281010196 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 931281010197 DNA binding site [nucleotide binding] 931281010198 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 931281010199 dimer interface [polypeptide binding]; other site 931281010200 phosphorylation site [posttranslational modification] 931281010201 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 931281010202 ATP binding site [chemical binding]; other site 931281010203 Mg2+ binding site [ion binding]; other site 931281010204 G-X-G motif; other site 931281010205 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 931281010206 Predicted membrane protein [Function unknown]; Region: COG2259 931281010207 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 931281010208 hypothetical protein; Provisional; Region: PRK05409 931281010209 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 931281010210 EF-hand domain pair; Region: EF_hand_5; pfam13499 931281010211 Ca2+ binding site [ion binding]; other site 931281010212 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 931281010213 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 931281010214 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 931281010215 Leucine-rich repeats; other site 931281010216 Leucine rich repeat; Region: LRR_8; pfam13855 931281010217 Leucine rich repeat; Region: LRR_8; pfam13855 931281010218 DNA polymerase II; Reviewed; Region: PRK05762 931281010219 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 931281010220 active site 931281010221 catalytic site [active] 931281010222 substrate binding site [chemical binding]; other site 931281010223 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 931281010224 active site 931281010225 metal-binding site 931281010226 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 931281010227 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 931281010228 putative substrate translocation pore; other site 931281010229 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281010230 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281010231 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_7; cd08476 931281010232 putative effector binding pocket; other site 931281010233 putative dimerization interface [polypeptide binding]; other site 931281010234 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281010235 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281010236 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 931281010237 dimerization interface [polypeptide binding]; other site 931281010238 YqcI/YcgG family; Region: YqcI_YcgG; pfam08892 931281010239 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 931281010240 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 931281010241 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 931281010242 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 931281010243 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 931281010244 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 931281010245 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281010246 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281010247 potential frameshift: common BLAST hit: gi|148548521|ref|YP_001268623.1| major facilitator superfamily transporter 931281010248 H+ Antiporter protein; Region: 2A0121; TIGR00900 931281010249 Protein of unknown function (DUF461); Region: DUF461; pfam04314 931281010250 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 931281010251 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 931281010252 Cu(I) binding site [ion binding]; other site 931281010253 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 931281010254 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 931281010255 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 931281010256 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 931281010257 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 931281010258 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 931281010259 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 931281010260 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 931281010261 substrate binding pocket [chemical binding]; other site 931281010262 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 931281010263 B12 binding site [chemical binding]; other site 931281010264 cobalt ligand [ion binding]; other site 931281010265 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 931281010266 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 931281010267 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_13; cd06324 931281010268 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 931281010269 putative ligand binding site [chemical binding]; other site 931281010270 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 931281010271 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 931281010272 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 931281010273 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 931281010274 E3 ubiquitin-protein ligase SspH2; Provisional; Region: PRK15387 931281010275 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 931281010276 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 931281010277 active site 931281010278 catalytic tetrad [active] 931281010279 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 931281010280 Major Facilitator Superfamily; Region: MFS_1; pfam07690 931281010281 putative substrate translocation pore; other site 931281010282 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 931281010283 putative substrate translocation pore; other site 931281010284 Major Facilitator Superfamily; Region: MFS_1; pfam07690 931281010285 Cupin domain; Region: Cupin_2; cl17218 931281010286 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281010287 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 931281010288 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281010289 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 931281010290 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 931281010291 active site 931281010292 Zn binding site [ion binding]; other site 931281010293 Spore Coat Protein U domain; Region: SCPU; pfam05229 931281010294 Spore Coat Protein U domain; Region: SCPU; pfam05229 931281010295 PapC N-terminal domain; Region: PapC_N; pfam13954 931281010296 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 931281010297 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 931281010298 PapC C-terminal domain; Region: PapC_C; pfam13953 931281010299 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 931281010300 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 931281010301 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 931281010302 Spore Coat Protein U domain; Region: SCPU; pfam05229 931281010303 Spore Coat Protein U domain; Region: SCPU; pfam05229 931281010304 Spore Coat Protein U domain; Region: SCPU; pfam05229 931281010305 Spore Coat Protein U domain; Region: SCPU; pfam05229 931281010306 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 931281010307 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 931281010308 putative active site [active] 931281010309 heme pocket [chemical binding]; other site 931281010310 GAF domain; Region: GAF; pfam01590 931281010311 Phytochrome region; Region: PHY; pfam00360 931281010312 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 931281010313 dimer interface [polypeptide binding]; other site 931281010314 phosphorylation site [posttranslational modification] 931281010315 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 931281010316 ATP binding site [chemical binding]; other site 931281010317 Mg2+ binding site [ion binding]; other site 931281010318 G-X-G motif; other site 931281010319 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 931281010320 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281010321 active site 931281010322 phosphorylation site [posttranslational modification] 931281010323 intermolecular recognition site; other site 931281010324 dimerization interface [polypeptide binding]; other site 931281010325 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 931281010326 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281010327 active site 931281010328 phosphorylation site [posttranslational modification] 931281010329 intermolecular recognition site; other site 931281010330 dimerization interface [polypeptide binding]; other site 931281010331 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 931281010332 PAS fold; Region: PAS_3; pfam08447 931281010333 putative active site [active] 931281010334 heme pocket [chemical binding]; other site 931281010335 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 931281010336 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 931281010337 dimer interface [polypeptide binding]; other site 931281010338 phosphorylation site [posttranslational modification] 931281010339 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 931281010340 ATP binding site [chemical binding]; other site 931281010341 Mg2+ binding site [ion binding]; other site 931281010342 G-X-G motif; other site 931281010343 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281010344 Response regulator receiver domain; Region: Response_reg; pfam00072 931281010345 intermolecular recognition site; other site 931281010346 active site 931281010347 dimerization interface [polypeptide binding]; other site 931281010348 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 931281010349 Predicted ATPase [General function prediction only]; Region: COG1485 931281010350 Walker A motif; other site 931281010351 ATP binding site [chemical binding]; other site 931281010352 Walker B motif; other site 931281010353 arginine finger; other site 931281010354 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 931281010355 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 931281010356 acyl-activating enzyme (AAE) consensus motif; other site 931281010357 putative AMP binding site [chemical binding]; other site 931281010358 putative active site [active] 931281010359 putative CoA binding site [chemical binding]; other site 931281010360 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281010361 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281010362 LysR substrate binding domain; Region: LysR_substrate; pfam03466 931281010363 dimerization interface [polypeptide binding]; other site 931281010364 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 931281010365 HPP family; Region: HPP; pfam04982 931281010366 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 931281010367 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 931281010368 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 931281010369 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 931281010370 ATP binding site [chemical binding]; other site 931281010371 Mg2+ binding site [ion binding]; other site 931281010372 G-X-G motif; other site 931281010373 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 931281010374 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281010375 active site 931281010376 phosphorylation site [posttranslational modification] 931281010377 intermolecular recognition site; other site 931281010378 dimerization interface [polypeptide binding]; other site 931281010379 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 931281010380 DNA binding site [nucleotide binding] 931281010381 Predicted membrane protein [Function unknown]; Region: COG3212 931281010382 Predicted membrane protein [Function unknown]; Region: COG3212 931281010383 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 931281010384 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 931281010385 active site 931281010386 Predicted Fe-S protein [General function prediction only]; Region: COG3313 931281010387 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 931281010388 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 931281010389 substrate binding site [chemical binding]; other site 931281010390 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 931281010391 substrate binding site [chemical binding]; other site 931281010392 ligand binding site [chemical binding]; other site 931281010393 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 931281010394 2-methylcitrate dehydratase; Region: prpD; TIGR02330 931281010395 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 931281010396 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 931281010397 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 931281010398 substrate binding site [chemical binding]; other site 931281010399 ligand binding site [chemical binding]; other site 931281010400 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 931281010401 substrate binding site [chemical binding]; other site 931281010402 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 931281010403 Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes...; Region: Ec2MCS_like; cd06108 931281010404 dimer interface [polypeptide binding]; other site 931281010405 active site 931281010406 citrylCoA binding site [chemical binding]; other site 931281010407 oxalacetate/citrate binding site [chemical binding]; other site 931281010408 coenzyme A binding site [chemical binding]; other site 931281010409 catalytic triad [active] 931281010410 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 931281010411 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 931281010412 tetramer interface [polypeptide binding]; other site 931281010413 active site 931281010414 Mg2+/Mn2+ binding site [ion binding]; other site 931281010415 Transcriptional regulators [Transcription]; Region: GntR; COG1802 931281010416 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281010417 DNA-binding site [nucleotide binding]; DNA binding site 931281010418 FCD domain; Region: FCD; pfam07729 931281010419 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 931281010420 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 931281010421 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 931281010422 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 931281010423 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 931281010424 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 931281010425 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 931281010426 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 931281010427 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 931281010428 Active Sites [active] 931281010429 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 931281010430 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281010431 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 931281010432 substrate binding site [chemical binding]; other site 931281010433 dimerization interface [polypeptide binding]; other site 931281010434 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 931281010435 Ligand Binding Site [chemical binding]; other site 931281010436 2-dehydropantoate 2-reductase; Provisional; Region: PRK06249 931281010437 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 931281010438 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 931281010439 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 931281010440 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 931281010441 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 931281010442 Coenzyme A binding pocket [chemical binding]; other site 931281010443 L,D-transpeptidase; Provisional; Region: PRK10260 931281010444 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 931281010445 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 931281010446 active site 931281010447 catalytic triad [active] 931281010448 oxyanion hole [active] 931281010449 switch loop; other site 931281010450 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 931281010451 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 931281010452 Walker A/P-loop; other site 931281010453 ATP binding site [chemical binding]; other site 931281010454 Q-loop/lid; other site 931281010455 ABC transporter signature motif; other site 931281010456 Walker B; other site 931281010457 D-loop; other site 931281010458 H-loop/switch region; other site 931281010459 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 931281010460 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 931281010461 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 931281010462 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 931281010463 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 931281010464 Predicted membrane protein [Function unknown]; Region: COG2259 931281010465 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 931281010466 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281010467 substrate binding pocket [chemical binding]; other site 931281010468 membrane-bound complex binding site; other site 931281010469 hinge residues; other site 931281010470 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 931281010471 N-acetyl-D-glucosamine binding site [chemical binding]; other site 931281010472 catalytic residue [active] 931281010473 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 931281010474 active site 931281010475 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 931281010476 dimerization interface [polypeptide binding]; other site 931281010477 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 931281010478 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 931281010479 dimer interface [polypeptide binding]; other site 931281010480 putative CheW interface [polypeptide binding]; other site 931281010481 Terminase small subunit; Region: Terminase_2; cl01513 931281010482 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 931281010483 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 931281010484 active site 931281010485 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 931281010486 active site 2 [active] 931281010487 active site 1 [active] 931281010488 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 931281010489 hypothetical protein; Provisional; Region: PRK10279 931281010490 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 931281010491 active site 931281010492 nucleophile elbow; other site 931281010493 periplasmic folding chaperone; Provisional; Region: PRK10788 931281010494 SurA N-terminal domain; Region: SurA_N_3; pfam13624 931281010495 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 931281010496 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 931281010497 IHF dimer interface [polypeptide binding]; other site 931281010498 IHF - DNA interface [nucleotide binding]; other site 931281010499 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 931281010500 Found in ATP-dependent protease La (LON); Region: LON; smart00464 931281010501 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 931281010502 Walker A motif; other site 931281010503 ATP binding site [chemical binding]; other site 931281010504 Walker B motif; other site 931281010505 arginine finger; other site 931281010506 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 931281010507 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 931281010508 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 931281010509 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 931281010510 Walker A motif; other site 931281010511 ATP binding site [chemical binding]; other site 931281010512 Walker B motif; other site 931281010513 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 931281010514 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 931281010515 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 931281010516 oligomer interface [polypeptide binding]; other site 931281010517 active site residues [active] 931281010518 trigger factor; Provisional; Region: tig; PRK01490 931281010519 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 931281010520 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 931281010521 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 931281010522 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 931281010523 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 931281010524 homodimer interface [polypeptide binding]; other site 931281010525 NADP binding site [chemical binding]; other site 931281010526 substrate binding site [chemical binding]; other site 931281010527 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 931281010528 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 931281010529 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 931281010530 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 931281010531 dimer interface [polypeptide binding]; other site 931281010532 conserved gate region; other site 931281010533 putative PBP binding loops; other site 931281010534 ABC-ATPase subunit interface; other site 931281010535 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 931281010536 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 931281010537 dimer interface [polypeptide binding]; other site 931281010538 conserved gate region; other site 931281010539 putative PBP binding loops; other site 931281010540 ABC-ATPase subunit interface; other site 931281010541 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 931281010542 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 931281010543 Walker A/P-loop; other site 931281010544 ATP binding site [chemical binding]; other site 931281010545 Q-loop/lid; other site 931281010546 ABC transporter signature motif; other site 931281010547 Walker B; other site 931281010548 D-loop; other site 931281010549 H-loop/switch region; other site 931281010550 TOBE domain; Region: TOBE; pfam03459 931281010551 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 931281010552 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 931281010553 Walker A/P-loop; other site 931281010554 ATP binding site [chemical binding]; other site 931281010555 Q-loop/lid; other site 931281010556 ABC transporter signature motif; other site 931281010557 Walker B; other site 931281010558 D-loop; other site 931281010559 H-loop/switch region; other site 931281010560 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 931281010561 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 931281010562 Walker A motif; other site 931281010563 ATP binding site [chemical binding]; other site 931281010564 Walker B motif; other site 931281010565 arginine finger; other site 931281010566 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 931281010567 PAS domain; Region: PAS_9; pfam13426 931281010568 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 931281010569 putative active site [active] 931281010570 heme pocket [chemical binding]; other site 931281010571 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 931281010572 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281010573 metal binding site [ion binding]; metal-binding site 931281010574 active site 931281010575 I-site; other site 931281010576 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 931281010577 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 931281010578 PAS fold; Region: PAS_3; pfam08447 931281010579 putative active site [active] 931281010580 heme pocket [chemical binding]; other site 931281010581 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 931281010582 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 931281010583 dimer interface [polypeptide binding]; other site 931281010584 putative CheW interface [polypeptide binding]; other site 931281010585 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 931281010586 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 931281010587 non-specific DNA binding site [nucleotide binding]; other site 931281010588 salt bridge; other site 931281010589 sequence-specific DNA binding site [nucleotide binding]; other site 931281010590 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 931281010591 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 931281010592 Transcriptional regulators [Transcription]; Region: FadR; COG2186 931281010593 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281010594 DNA-binding site [nucleotide binding]; DNA binding site 931281010595 FCD domain; Region: FCD; pfam07729 931281010596 Transcriptional regulators [Transcription]; Region: FadR; COG2186 931281010597 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281010598 DNA-binding site [nucleotide binding]; DNA binding site 931281010599 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 931281010600 Predicted membrane protein [Function unknown]; Region: COG4125 931281010601 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 931281010602 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 931281010603 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281010604 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281010605 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 931281010606 dimerization interface [polypeptide binding]; other site 931281010607 Cache domain; Region: Cache_1; pfam02743 931281010608 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 931281010609 dimerization interface [polypeptide binding]; other site 931281010610 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 931281010611 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 931281010612 dimer interface [polypeptide binding]; other site 931281010613 putative CheW interface [polypeptide binding]; other site 931281010614 Uncharacterized membrane protein [Function unknown]; Region: COG3949 931281010615 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 931281010616 homotrimer interaction site [polypeptide binding]; other site 931281010617 putative active site [active] 931281010618 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 931281010619 hydroxyglutarate oxidase; Provisional; Region: PRK11728 931281010620 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 931281010621 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 931281010622 non-specific DNA binding site [nucleotide binding]; other site 931281010623 salt bridge; other site 931281010624 sequence-specific DNA binding site [nucleotide binding]; other site 931281010625 Cupin domain; Region: Cupin_2; pfam07883 931281010626 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 931281010627 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 931281010628 outer membrane receptor FepA; Provisional; Region: PRK13524 931281010629 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 931281010630 N-terminal plug; other site 931281010631 ligand-binding site [chemical binding]; other site 931281010632 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 931281010633 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 931281010634 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 931281010635 threonine and homoserine efflux system; Provisional; Region: PRK10532 931281010636 EamA-like transporter family; Region: EamA; cl17759 931281010637 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 931281010638 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 931281010639 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 931281010640 active site 931281010641 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 931281010642 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 931281010643 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 931281010644 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 931281010645 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 931281010646 conserved cys residue [active] 931281010647 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281010648 Isochorismatase family; Region: Isochorismatase; pfam00857 931281010649 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 931281010650 catalytic triad [active] 931281010651 conserved cis-peptide bond; other site 931281010652 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 931281010653 non-specific DNA binding site [nucleotide binding]; other site 931281010654 salt bridge; other site 931281010655 sequence-specific DNA binding site [nucleotide binding]; other site 931281010656 Cupin domain; Region: Cupin_2; pfam07883 931281010657 EamA-like transporter family; Region: EamA; pfam00892 931281010658 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 931281010659 EamA-like transporter family; Region: EamA; pfam00892 931281010660 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 931281010661 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 931281010662 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 931281010663 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 931281010664 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 931281010665 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 931281010666 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 931281010667 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 931281010668 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 931281010669 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 931281010670 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 931281010671 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 931281010672 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 931281010673 enoyl-CoA hydratase; Provisional; Region: PRK05862 931281010674 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 931281010675 substrate binding site [chemical binding]; other site 931281010676 oxyanion hole (OAH) forming residues; other site 931281010677 trimer interface [polypeptide binding]; other site 931281010678 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 931281010679 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 931281010680 FAD binding site [chemical binding]; other site 931281010681 homotetramer interface [polypeptide binding]; other site 931281010682 substrate binding pocket [chemical binding]; other site 931281010683 catalytic base [active] 931281010684 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 931281010685 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 931281010686 dimer interface [polypeptide binding]; other site 931281010687 active site 931281010688 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 931281010689 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 931281010690 NAD(P) binding site [chemical binding]; other site 931281010691 active site 931281010692 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 931281010693 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 931281010694 acyl-activating enzyme (AAE) consensus motif; other site 931281010695 AMP binding site [chemical binding]; other site 931281010696 active site 931281010697 CoA binding site [chemical binding]; other site 931281010698 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 931281010699 Leucine rich repeat; Region: LRR_8; pfam13855 931281010700 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 931281010701 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 931281010702 SurA N-terminal domain; Region: SurA_N; pfam09312 931281010703 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281010704 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281010705 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 931281010706 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 931281010707 dimerization interface [polypeptide binding]; other site 931281010708 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 931281010709 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 931281010710 catalytic residue [active] 931281010711 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 931281010712 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 931281010713 motif II; other site 931281010714 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 931281010715 Domain of unknown function DUF20; Region: UPF0118; pfam01594 931281010716 putative protease; Provisional; Region: PRK15452 931281010717 Peptidase family U32; Region: Peptidase_U32; pfam01136 931281010718 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 931281010719 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 931281010720 Multicopper oxidase; Region: Cu-oxidase; pfam00394 931281010721 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 931281010722 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 931281010723 Protein of unknown function, DUF; Region: DUF411; cl01142 931281010724 Predicted membrane protein [Function unknown]; Region: COG1238 931281010725 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 931281010726 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 931281010727 DinB family; Region: DinB; cl17821 931281010728 DinB superfamily; Region: DinB_2; pfam12867 931281010729 Predicted ATPase [General function prediction only]; Region: COG1485 931281010730 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 931281010731 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 931281010732 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 931281010733 agmatinase; Region: agmatinase; TIGR01230 931281010734 oligomer interface [polypeptide binding]; other site 931281010735 putative active site [active] 931281010736 Mn binding site [ion binding]; other site 931281010737 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 931281010738 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 931281010739 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281010740 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281010741 LysR substrate binding domain; Region: LysR_substrate; pfam03466 931281010742 dimerization interface [polypeptide binding]; other site 931281010743 Secretin and TonB N terminus short domain; Region: STN; smart00965 931281010744 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 931281010745 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 931281010746 N-terminal plug; other site 931281010747 ligand-binding site [chemical binding]; other site 931281010748 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 931281010749 RNA polymerase sigma factor; Reviewed; Region: PRK12527 931281010750 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 931281010751 DNA binding residues [nucleotide binding] 931281010752 FecR protein; Region: FecR; pfam04773 931281010753 Water Stress and Hypersensitive response; Region: WHy; smart00769 931281010754 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 931281010755 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 931281010756 active site 931281010757 dinuclear metal binding site [ion binding]; other site 931281010758 dimerization interface [polypeptide binding]; other site 931281010759 universal stress protein UspE; Provisional; Region: PRK11175 931281010760 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 931281010761 Ligand Binding Site [chemical binding]; other site 931281010762 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 931281010763 Ligand Binding Site [chemical binding]; other site 931281010764 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 931281010765 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 931281010766 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 931281010767 catalytic loop [active] 931281010768 iron binding site [ion binding]; other site 931281010769 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 931281010770 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 931281010771 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 931281010772 [4Fe-4S] binding site [ion binding]; other site 931281010773 molybdopterin cofactor binding site; other site 931281010774 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 931281010775 molybdopterin cofactor binding site; other site 931281010776 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 931281010777 putative dimer interface [polypeptide binding]; other site 931281010778 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 931281010779 SLBB domain; Region: SLBB; pfam10531 931281010780 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 931281010781 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 931281010782 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 931281010783 putative dimer interface [polypeptide binding]; other site 931281010784 [2Fe-2S] cluster binding site [ion binding]; other site 931281010785 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 931281010786 ProQ/FINO family; Region: ProQ; pfam04352 931281010787 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 931281010788 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 931281010789 non-specific DNA binding site [nucleotide binding]; other site 931281010790 salt bridge; other site 931281010791 sequence-specific DNA binding site [nucleotide binding]; other site 931281010792 Cupin domain; Region: Cupin_2; pfam07883 931281010793 putative aminotransferase; Validated; Region: PRK07480 931281010794 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 931281010795 inhibitor-cofactor binding pocket; inhibition site 931281010796 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281010797 catalytic residue [active] 931281010798 Peptidase C26; Region: Peptidase_C26; pfam07722 931281010799 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 931281010800 catalytic triad [active] 931281010801 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 931281010802 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 931281010803 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 931281010804 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 931281010805 non-specific DNA binding site [nucleotide binding]; other site 931281010806 salt bridge; other site 931281010807 sequence-specific DNA binding site [nucleotide binding]; other site 931281010808 Cupin domain; Region: Cupin_2; pfam07883 931281010809 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 931281010810 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281010811 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 931281010812 dimerization interface [polypeptide binding]; other site 931281010813 substrate binding pocket [chemical binding]; other site 931281010814 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 931281010815 oxidoreductase; Provisional; Region: PRK12743 931281010816 putative NAD(P) binding site [chemical binding]; other site 931281010817 putative active site [active] 931281010818 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 931281010819 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281010820 Helix-turn-helix domain; Region: HTH_18; pfam12833 931281010821 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281010822 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 931281010823 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 931281010824 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 931281010825 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 931281010826 Chorismate mutase type II; Region: CM_2; smart00830 931281010827 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 931281010828 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 931281010829 FMN binding site [chemical binding]; other site 931281010830 active site 931281010831 catalytic residues [active] 931281010832 substrate binding site [chemical binding]; other site 931281010833 transaldolase-like protein; Provisional; Region: PTZ00411 931281010834 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 931281010835 active site 931281010836 dimer interface [polypeptide binding]; other site 931281010837 catalytic residue [active] 931281010838 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 931281010839 metal binding site [ion binding]; metal-binding site 931281010840 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 931281010841 putative active site [active] 931281010842 putative metal binding site [ion binding]; other site 931281010843 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 931281010844 anti sigma factor interaction site; other site 931281010845 regulatory phosphorylation site [posttranslational modification]; other site 931281010846 Response regulator receiver domain; Region: Response_reg; pfam00072 931281010847 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281010848 active site 931281010849 phosphorylation site [posttranslational modification] 931281010850 intermolecular recognition site; other site 931281010851 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 931281010852 dimerization interface [polypeptide binding]; other site 931281010853 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 931281010854 PilZ domain; Region: PilZ; pfam07238 931281010855 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 931281010856 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 931281010857 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 931281010858 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 931281010859 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 931281010860 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 931281010861 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 931281010862 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 931281010863 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281010864 active site 931281010865 phosphorylation site [posttranslational modification] 931281010866 intermolecular recognition site; other site 931281010867 dimerization interface [polypeptide binding]; other site 931281010868 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 931281010869 DNA binding site [nucleotide binding] 931281010870 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 931281010871 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 931281010872 dimerization interface [polypeptide binding]; other site 931281010873 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 931281010874 dimer interface [polypeptide binding]; other site 931281010875 phosphorylation site [posttranslational modification] 931281010876 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 931281010877 ATP binding site [chemical binding]; other site 931281010878 Mg2+ binding site [ion binding]; other site 931281010879 G-X-G motif; other site 931281010880 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 931281010881 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 931281010882 FtsX-like permease family; Region: FtsX; pfam02687 931281010883 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 931281010884 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 931281010885 Walker A/P-loop; other site 931281010886 ATP binding site [chemical binding]; other site 931281010887 Q-loop/lid; other site 931281010888 ABC transporter signature motif; other site 931281010889 Walker B; other site 931281010890 D-loop; other site 931281010891 H-loop/switch region; other site 931281010892 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 931281010893 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 931281010894 FtsX-like permease family; Region: FtsX; pfam02687 931281010895 PilZ domain; Region: PilZ; pfam07238 931281010896 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 931281010897 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 931281010898 active site 931281010899 catalytic site [active] 931281010900 metal binding site [ion binding]; metal-binding site 931281010901 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 931281010902 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 931281010903 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 931281010904 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 931281010905 ApbE family; Region: ApbE; pfam02424 931281010906 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 931281010907 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 931281010908 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 931281010909 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 931281010910 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 931281010911 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 931281010912 ATP binding site [chemical binding]; other site 931281010913 putative Mg++ binding site [ion binding]; other site 931281010914 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 931281010915 nucleotide binding region [chemical binding]; other site 931281010916 ATP-binding site [chemical binding]; other site 931281010917 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 931281010918 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 931281010919 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 931281010920 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 931281010921 ATP binding site [chemical binding]; other site 931281010922 putative Mg++ binding site [ion binding]; other site 931281010923 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 931281010924 nucleotide binding region [chemical binding]; other site 931281010925 ATP-binding site [chemical binding]; other site 931281010926 beta-hexosaminidase; Provisional; Region: PRK05337 931281010927 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 931281010928 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 931281010929 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 931281010930 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 931281010931 LexA repressor; Validated; Region: PRK00215 931281010932 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 931281010933 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 931281010934 Catalytic site [active] 931281010935 Cell division inhibitor SulA; Region: SulA; cl01880 931281010936 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 931281010937 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 931281010938 active site 931281010939 interdomain interaction site; other site 931281010940 putative metal-binding site [ion binding]; other site 931281010941 nucleotide binding site [chemical binding]; other site 931281010942 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 931281010943 domain I; other site 931281010944 DNA binding groove [nucleotide binding] 931281010945 phosphate binding site [ion binding]; other site 931281010946 domain II; other site 931281010947 domain III; other site 931281010948 nucleotide binding site [chemical binding]; other site 931281010949 catalytic site [active] 931281010950 domain IV; other site 931281010951 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 931281010952 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 931281010953 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 931281010954 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 931281010955 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 931281010956 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 931281010957 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 931281010958 dimer interface [polypeptide binding]; other site 931281010959 active site 931281010960 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 931281010961 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 931281010962 substrate binding site [chemical binding]; other site 931281010963 oxyanion hole (OAH) forming residues; other site 931281010964 trimer interface [polypeptide binding]; other site 931281010965 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 931281010966 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 931281010967 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 931281010968 Ligand Binding Site [chemical binding]; other site 931281010969 ABC transporter ATPase component; Reviewed; Region: PRK11147 931281010970 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 931281010971 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 931281010972 ABC transporter; Region: ABC_tran_2; pfam12848 931281010973 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 931281010974 lytic murein transglycosylase; Provisional; Region: PRK11619 931281010975 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 931281010976 N-acetyl-D-glucosamine binding site [chemical binding]; other site 931281010977 catalytic residue [active] 931281010978 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 931281010979 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 931281010980 MOSC domain; Region: MOSC; pfam03473 931281010981 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 931281010982 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 931281010983 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281010984 active site 931281010985 phosphorylation site [posttranslational modification] 931281010986 intermolecular recognition site; other site 931281010987 dimerization interface [polypeptide binding]; other site 931281010988 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 931281010989 Histidine kinase; Region: HisKA_3; pfam07730 931281010990 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 931281010991 ATP binding site [chemical binding]; other site 931281010992 Mg2+ binding site [ion binding]; other site 931281010993 G-X-G motif; other site 931281010994 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 931281010995 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281010996 active site 931281010997 phosphorylation site [posttranslational modification] 931281010998 intermolecular recognition site; other site 931281010999 dimerization interface [polypeptide binding]; other site 931281011000 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 931281011001 DNA binding residues [nucleotide binding] 931281011002 dimerization interface [polypeptide binding]; other site 931281011003 lipid kinase; Reviewed; Region: PRK13054 931281011004 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 931281011005 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 931281011006 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 931281011007 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 931281011008 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 931281011009 dimer interface [polypeptide binding]; other site 931281011010 putative functional site; other site 931281011011 putative MPT binding site; other site 931281011012 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 931281011013 MPT binding site; other site 931281011014 trimer interface [polypeptide binding]; other site 931281011015 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 931281011016 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 931281011017 dimerization interface [polypeptide binding]; other site 931281011018 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 931281011019 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 931281011020 dimer interface [polypeptide binding]; other site 931281011021 putative CheW interface [polypeptide binding]; other site 931281011022 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 931281011023 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 931281011024 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281011025 Walker A/P-loop; other site 931281011026 ATP binding site [chemical binding]; other site 931281011027 Q-loop/lid; other site 931281011028 ABC transporter signature motif; other site 931281011029 Walker B; other site 931281011030 D-loop; other site 931281011031 H-loop/switch region; other site 931281011032 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 931281011033 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 931281011034 ligand binding site [chemical binding]; other site 931281011035 NAD binding site [chemical binding]; other site 931281011036 catalytic site [active] 931281011037 homodimer interface [polypeptide binding]; other site 931281011038 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 931281011039 CPxP motif; other site 931281011040 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 931281011041 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 931281011042 aconitate hydratase; Validated; Region: PRK09277 931281011043 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 931281011044 substrate binding site [chemical binding]; other site 931281011045 ligand binding site [chemical binding]; other site 931281011046 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 931281011047 substrate binding site [chemical binding]; other site 931281011048 PAS domain; Region: PAS_9; pfam13426 931281011049 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 931281011050 putative active site [active] 931281011051 heme pocket [chemical binding]; other site 931281011052 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 931281011053 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 931281011054 dimer interface [polypeptide binding]; other site 931281011055 putative CheW interface [polypeptide binding]; other site 931281011056 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 931281011057 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 931281011058 active site 931281011059 Peptidase M15; Region: Peptidase_M15_3; pfam08291 931281011060 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 931281011061 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 931281011062 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 931281011063 Predicted membrane protein [Function unknown]; Region: COG5393 931281011064 potential frameshift: common BLAST hit: gi|26988827|ref|NP_744252.1| deoxyguanosinetriphosphate triphosphohydrolase-like protein 931281011065 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 931281011066 Zn2+ binding site [ion binding]; other site 931281011067 Mg2+ binding site [ion binding]; other site 931281011068 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 931281011069 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 931281011070 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281011071 active site 931281011072 phosphorylation site [posttranslational modification] 931281011073 intermolecular recognition site; other site 931281011074 dimerization interface [polypeptide binding]; other site 931281011075 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 931281011076 DNA binding residues [nucleotide binding] 931281011077 dimerization interface [polypeptide binding]; other site 931281011078 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 931281011079 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281011080 substrate binding pocket [chemical binding]; other site 931281011081 membrane-bound complex binding site; other site 931281011082 hinge residues; other site 931281011083 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281011084 substrate binding pocket [chemical binding]; other site 931281011085 membrane-bound complex binding site; other site 931281011086 hinge residues; other site 931281011087 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 931281011088 putative active site [active] 931281011089 heme pocket [chemical binding]; other site 931281011090 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 931281011091 dimer interface [polypeptide binding]; other site 931281011092 phosphorylation site [posttranslational modification] 931281011093 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 931281011094 ATP binding site [chemical binding]; other site 931281011095 Mg2+ binding site [ion binding]; other site 931281011096 G-X-G motif; other site 931281011097 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281011098 active site 931281011099 phosphorylation site [posttranslational modification] 931281011100 intermolecular recognition site; other site 931281011101 dimerization interface [polypeptide binding]; other site 931281011102 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 931281011103 putative binding surface; other site 931281011104 active site 931281011105 hypothetical protein; Provisional; Region: PRK11702 931281011106 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 931281011107 CHASE domain; Region: CHASE; pfam03924 931281011108 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 931281011109 PAS domain; Region: PAS_9; pfam13426 931281011110 putative active site [active] 931281011111 heme pocket [chemical binding]; other site 931281011112 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 931281011113 heme pocket [chemical binding]; other site 931281011114 putative active site [active] 931281011115 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 931281011116 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281011117 metal binding site [ion binding]; metal-binding site 931281011118 active site 931281011119 I-site; other site 931281011120 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 931281011121 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 931281011122 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 931281011123 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 931281011124 S-adenosylmethionine binding site [chemical binding]; other site 931281011125 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 931281011126 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 931281011127 quinone interaction residues [chemical binding]; other site 931281011128 active site 931281011129 catalytic residues [active] 931281011130 FMN binding site [chemical binding]; other site 931281011131 substrate binding site [chemical binding]; other site 931281011132 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 931281011133 NMT1-like family; Region: NMT1_2; pfam13379 931281011134 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 931281011135 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281011136 active site 931281011137 phosphorylation site [posttranslational modification] 931281011138 intermolecular recognition site; other site 931281011139 dimerization interface [polypeptide binding]; other site 931281011140 ANTAR domain; Region: ANTAR; pfam03861 931281011141 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 931281011142 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 931281011143 putative substrate translocation pore; other site 931281011144 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 931281011145 active site 931281011146 Protein kinase domain; Region: Pkinase; pfam00069 931281011147 Catalytic domain of Protein Kinases; Region: PKc; cd00180 931281011148 active site 931281011149 ATP binding site [chemical binding]; other site 931281011150 substrate binding site [chemical binding]; other site 931281011151 activation loop (A-loop); other site 931281011152 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 931281011153 active site 931281011154 SAM binding site [chemical binding]; other site 931281011155 homodimer interface [polypeptide binding]; other site 931281011156 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 931281011157 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 931281011158 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 931281011159 ligand binding site [chemical binding]; other site 931281011160 RNA polymerase sigma factor SigX; Reviewed; Region: PRK09640 931281011161 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 931281011162 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 931281011163 DNA binding residues [nucleotide binding] 931281011164 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 931281011165 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 931281011166 Cl binding site [ion binding]; other site 931281011167 oligomer interface [polypeptide binding]; other site 931281011168 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 931281011169 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 931281011170 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 931281011171 phosphoenolpyruvate synthase; Validated; Region: PRK06464 931281011172 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 931281011173 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 931281011174 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 931281011175 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 931281011176 PEP synthetase regulatory protein; Provisional; Region: PRK05339 931281011177 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 931281011178 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 931281011179 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281011180 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 931281011181 dimerization interface [polypeptide binding]; other site 931281011182 diaminopimelate decarboxylase; Provisional; Region: PRK11165 931281011183 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 931281011184 active site 931281011185 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 931281011186 substrate binding site [chemical binding]; other site 931281011187 catalytic residues [active] 931281011188 dimer interface [polypeptide binding]; other site 931281011189 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 931281011190 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 931281011191 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 931281011192 DNA binding residues [nucleotide binding] 931281011193 fec operon regulator FecR; Reviewed; Region: PRK09774 931281011194 FecR protein; Region: FecR; pfam04773 931281011195 Secretin and TonB N terminus short domain; Region: STN; smart00965 931281011196 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 931281011197 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 931281011198 N-terminal plug; other site 931281011199 ligand-binding site [chemical binding]; other site 931281011200 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281011201 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281011202 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 931281011203 putative substrate binding pocket [chemical binding]; other site 931281011204 putative dimerization interface [polypeptide binding]; other site 931281011205 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 931281011206 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 931281011207 Coenzyme A binding pocket [chemical binding]; other site 931281011208 Cupin domain; Region: Cupin_2; cl17218 931281011209 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281011210 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 931281011211 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281011212 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 931281011213 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 931281011214 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 931281011215 HlyD family secretion protein; Region: HlyD_3; pfam13437 931281011216 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 931281011217 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 931281011218 putative substrate translocation pore; other site 931281011219 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 931281011220 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 931281011221 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281011222 DNA-binding site [nucleotide binding]; DNA binding site 931281011223 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 931281011224 multidrug efflux protein; Reviewed; Region: PRK09579 931281011225 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 931281011226 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 931281011227 HlyD family secretion protein; Region: HlyD_3; pfam13437 931281011228 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 931281011229 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 931281011230 DNA binding residues [nucleotide binding] 931281011231 dimer interface [polypeptide binding]; other site 931281011232 [2Fe-2S] cluster binding site [ion binding]; other site 931281011233 CsbD-like; Region: CsbD; pfam05532 931281011234 outer membrane porin, OprD family; Region: OprD; pfam03573 931281011235 H+/citrate symporter [Energy production and conversion]; Region: CitM; cl17620 931281011236 Citrate transporter; Region: CitMHS; pfam03600 931281011237 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 931281011238 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 931281011239 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 931281011240 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281011241 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281011242 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 931281011243 putative dimerization interface [polypeptide binding]; other site 931281011244 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 931281011245 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 931281011246 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 931281011247 motif II; other site 931281011248 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 931281011249 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 931281011250 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 931281011251 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 931281011252 dimer interface [polypeptide binding]; other site 931281011253 active site 931281011254 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 931281011255 active site 931281011256 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 931281011257 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 931281011258 putative active site [active] 931281011259 metal binding site [ion binding]; metal-binding site 931281011260 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 931281011261 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 931281011262 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 931281011263 active site 931281011264 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 931281011265 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 931281011266 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 931281011267 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 931281011268 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 931281011269 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281011270 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281011271 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 931281011272 dimerization interface [polypeptide binding]; other site 931281011273 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 931281011274 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 931281011275 Domain of unknown function (DUF202); Region: DUF202; cl09954 931281011276 Domain of unknown function (DUF202); Region: DUF202; cl09954 931281011277 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 931281011278 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 931281011279 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281011280 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281011281 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 931281011282 putative dimerization interface [polypeptide binding]; other site 931281011283 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 931281011284 D-galactonate transporter; Region: 2A0114; TIGR00893 931281011285 putative substrate translocation pore; other site 931281011286 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 931281011287 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 931281011288 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 931281011289 active site 931281011290 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 931281011291 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 931281011292 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 931281011293 acyl-activating enzyme (AAE) consensus motif; other site 931281011294 acyl-activating enzyme (AAE) consensus motif; other site 931281011295 putative AMP binding site [chemical binding]; other site 931281011296 putative active site [active] 931281011297 putative CoA binding site [chemical binding]; other site 931281011298 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 931281011299 intersubunit interface [polypeptide binding]; other site 931281011300 active site 931281011301 Zn2+ binding site [ion binding]; other site 931281011302 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 931281011303 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 931281011304 inhibitor site; inhibition site 931281011305 active site 931281011306 dimer interface [polypeptide binding]; other site 931281011307 catalytic residue [active] 931281011308 benzoate transporter; Region: benE; TIGR00843 931281011309 Benzoate membrane transport protein; Region: BenE; pfam03594 931281011310 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 931281011311 MoxR-like ATPases [General function prediction only]; Region: COG0714 931281011312 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 931281011313 Walker A motif; other site 931281011314 ATP binding site [chemical binding]; other site 931281011315 Walker B motif; other site 931281011316 arginine finger; other site 931281011317 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 931281011318 Protein of unknown function DUF58; Region: DUF58; pfam01882 931281011319 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 931281011320 Mg-chelatase subunit ChlD [Coenzyme metabolism]; Region: ChlD; COG1240 931281011321 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 931281011322 metal ion-dependent adhesion site (MIDAS); other site 931281011323 von Willebrand factor type A domain; Region: VWA_2; pfam13519 931281011324 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 931281011325 Tetratricopeptide repeat; Region: TPR_16; pfam13432 931281011326 TPR motif; other site 931281011327 binding surface 931281011328 Oxygen tolerance; Region: BatD; pfam13584 931281011329 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 931281011330 exonuclease subunit SbcD; Provisional; Region: PRK10966 931281011331 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 931281011332 active site 931281011333 metal binding site [ion binding]; metal-binding site 931281011334 DNA binding site [nucleotide binding] 931281011335 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 931281011336 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281011337 AAA domain; Region: AAA_23; pfam13476 931281011338 Walker A/P-loop; other site 931281011339 ATP binding site [chemical binding]; other site 931281011340 Q-loop/lid; other site 931281011341 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281011342 ABC transporter signature motif; other site 931281011343 Walker B; other site 931281011344 D-loop; other site 931281011345 H-loop/switch region; other site 931281011346 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 931281011347 GST_N family, Omega-like subfamily; composed of uncharacterized proteins with similarity to class Omega GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_Omega_like; cd03060 931281011348 putative GSH binding site (G-site) [chemical binding]; other site 931281011349 active site cysteine [active] 931281011350 putative C-terminal domain interface [polypeptide binding]; other site 931281011351 putative dimer interface [polypeptide binding]; other site 931281011352 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 931281011353 putative N-terminal domain interface [polypeptide binding]; other site 931281011354 putative dimer interface [polypeptide binding]; other site 931281011355 putative substrate binding pocket (H-site) [chemical binding]; other site 931281011356 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 931281011357 3-dehydroquinate synthase (EC 4.6.1.3); Region: DHQS; cl00640 931281011358 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 931281011359 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 931281011360 aminopeptidase N; Provisional; Region: pepN; PRK14015 931281011361 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 931281011362 active site 931281011363 Zn binding site [ion binding]; other site 931281011364 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 931281011365 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 931281011366 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 931281011367 Rhomboid family; Region: Rhomboid; pfam01694 931281011368 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 931281011369 active site 931281011370 metal binding site [ion binding]; metal-binding site 931281011371 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 931281011372 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 931281011373 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 931281011374 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 931281011375 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 931281011376 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 931281011377 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 931281011378 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 931281011379 active site 931281011380 FMN binding site [chemical binding]; other site 931281011381 2,4-decadienoyl-CoA binding site; other site 931281011382 catalytic residue [active] 931281011383 4Fe-4S cluster binding site [ion binding]; other site 931281011384 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 931281011385 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 931281011386 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 931281011387 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281011388 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 931281011389 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 931281011390 putative NAD(P) binding site [chemical binding]; other site 931281011391 SURF4 family; Region: SURF4; pfam02077 931281011392 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 931281011393 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 931281011394 NAD(P) binding site [chemical binding]; other site 931281011395 active site 931281011396 Agrobacterium tumefaciens protein Atu4866; Region: Atu4866; pfam11512 931281011397 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 931281011398 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281011399 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281011400 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 931281011401 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281011402 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281011403 LysR substrate binding domain; Region: LysR_substrate; pfam03466 931281011404 dimerization interface [polypeptide binding]; other site 931281011405 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 931281011406 classical (c) SDRs; Region: SDR_c; cd05233 931281011407 NAD(P) binding site [chemical binding]; other site 931281011408 active site 931281011409 Uncharacterized conserved protein [Function unknown]; Region: COG1359 931281011410 short chain dehydrogenase; Provisional; Region: PRK06180 931281011411 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 931281011412 NADP binding site [chemical binding]; other site 931281011413 active site 931281011414 steroid binding site; other site 931281011415 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 931281011416 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 931281011417 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 931281011418 Fimbrial protein; Region: Fimbrial; pfam00419 931281011419 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 931281011420 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 931281011421 dimer interface [polypeptide binding]; other site 931281011422 phosphorylation site [posttranslational modification] 931281011423 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 931281011424 ATP binding site [chemical binding]; other site 931281011425 Mg2+ binding site [ion binding]; other site 931281011426 G-X-G motif; other site 931281011427 Response regulator receiver domain; Region: Response_reg; pfam00072 931281011428 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281011429 active site 931281011430 phosphorylation site [posttranslational modification] 931281011431 intermolecular recognition site; other site 931281011432 dimerization interface [polypeptide binding]; other site 931281011433 Response regulator receiver domain; Region: Response_reg; pfam00072 931281011434 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281011435 active site 931281011436 phosphorylation site [posttranslational modification] 931281011437 intermolecular recognition site; other site 931281011438 dimerization interface [polypeptide binding]; other site 931281011439 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 931281011440 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 931281011441 dimer interface [polypeptide binding]; other site 931281011442 phosphorylation site [posttranslational modification] 931281011443 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 931281011444 ATP binding site [chemical binding]; other site 931281011445 Mg2+ binding site [ion binding]; other site 931281011446 G-X-G motif; other site 931281011447 Response regulator receiver domain; Region: Response_reg; pfam00072 931281011448 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281011449 active site 931281011450 phosphorylation site [posttranslational modification] 931281011451 intermolecular recognition site; other site 931281011452 dimerization interface [polypeptide binding]; other site 931281011453 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 931281011454 putative binding surface; other site 931281011455 active site 931281011456 transcriptional regulator RcsB; Provisional; Region: PRK10840 931281011457 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281011458 active site 931281011459 phosphorylation site [posttranslational modification] 931281011460 intermolecular recognition site; other site 931281011461 dimerization interface [polypeptide binding]; other site 931281011462 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 931281011463 DNA binding residues [nucleotide binding] 931281011464 dimerization interface [polypeptide binding]; other site 931281011465 Fimbrial protein; Region: Fimbrial; pfam00419 931281011466 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 931281011467 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 931281011468 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 931281011469 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 931281011470 PapC N-terminal domain; Region: PapC_N; pfam13954 931281011471 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 931281011472 PapC C-terminal domain; Region: PapC_C; pfam13953 931281011473 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 931281011474 active site 931281011475 catalytic triad [active] 931281011476 dimer interface [polypeptide binding]; other site 931281011477 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 931281011478 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 931281011479 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281011480 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 931281011481 oxidoreductase; Validated; Region: PRK05717 931281011482 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 931281011483 NAD(P) binding site [chemical binding]; other site 931281011484 active site 931281011485 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 931281011486 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 931281011487 homodimer interface [polypeptide binding]; other site 931281011488 substrate-cofactor binding pocket; other site 931281011489 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281011490 catalytic residue [active] 931281011491 amidophosphoribosyltransferase; Provisional; Region: PRK09246 931281011492 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 931281011493 active site 931281011494 tetramer interface [polypeptide binding]; other site 931281011495 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 931281011496 active site 931281011497 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 931281011498 Colicin V production protein; Region: Colicin_V; cl00567 931281011499 Sporulation related domain; Region: SPOR; pfam05036 931281011500 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 931281011501 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 931281011502 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 931281011503 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 931281011504 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 931281011505 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 931281011506 active site 931281011507 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 931281011508 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 931281011509 dimerization interface 3.5A [polypeptide binding]; other site 931281011510 active site 931281011511 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 931281011512 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 931281011513 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK05671 931281011514 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 931281011515 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 931281011516 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 931281011517 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 931281011518 tartrate dehydrogenase; Region: TTC; TIGR02089 931281011519 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 931281011520 S-adenosylmethionine binding site [chemical binding]; other site 931281011521 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 931281011522 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 931281011523 substrate binding site [chemical binding]; other site 931281011524 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 931281011525 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 931281011526 substrate binding site [chemical binding]; other site 931281011527 ligand binding site [chemical binding]; other site 931281011528 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281011529 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281011530 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 931281011531 dimerization interface [polypeptide binding]; other site 931281011532 PAS fold; Region: PAS_3; pfam08447 931281011533 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 931281011534 putative active site [active] 931281011535 heme pocket [chemical binding]; other site 931281011536 PAS domain S-box; Region: sensory_box; TIGR00229 931281011537 PAS domain; Region: PAS; smart00091 931281011538 putative active site [active] 931281011539 PAS fold; Region: PAS_3; pfam08447 931281011540 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 931281011541 PAS domain S-box; Region: sensory_box; TIGR00229 931281011542 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 931281011543 putative active site [active] 931281011544 heme pocket [chemical binding]; other site 931281011545 PAS domain S-box; Region: sensory_box; TIGR00229 931281011546 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 931281011547 putative active site [active] 931281011548 heme pocket [chemical binding]; other site 931281011549 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 931281011550 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281011551 metal binding site [ion binding]; metal-binding site 931281011552 active site 931281011553 I-site; other site 931281011554 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 931281011555 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 931281011556 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 931281011557 putative dimer interface [polypeptide binding]; other site 931281011558 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 931281011559 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 931281011560 FMN binding site [chemical binding]; other site 931281011561 active site 931281011562 catalytic residues [active] 931281011563 substrate binding site [chemical binding]; other site 931281011564 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 931281011565 active site 931281011566 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 931281011567 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 931281011568 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 931281011569 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 931281011570 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 931281011571 active site 931281011572 HIGH motif; other site 931281011573 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 931281011574 active site 931281011575 KMSKS motif; other site 931281011576 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 931281011577 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 931281011578 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 931281011579 HlyD family secretion protein; Region: HlyD_3; pfam13437 931281011580 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 931281011581 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 931281011582 putative substrate translocation pore; other site 931281011583 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 931281011584 excinuclease ABC subunit B; Provisional; Region: PRK05298 931281011585 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 931281011586 ATP binding site [chemical binding]; other site 931281011587 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 931281011588 nucleotide binding region [chemical binding]; other site 931281011589 ATP-binding site [chemical binding]; other site 931281011590 Ultra-violet resistance protein B; Region: UvrB; pfam12344 931281011591 UvrB/uvrC motif; Region: UVR; pfam02151 931281011592 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 931281011593 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 931281011594 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281011595 homodimer interface [polypeptide binding]; other site 931281011596 catalytic residue [active] 931281011597 Cupin domain; Region: Cupin_2; pfam07883 931281011598 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 931281011599 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 931281011600 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 931281011601 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 931281011602 FeS/SAM binding site; other site 931281011603 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 931281011604 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 931281011605 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 931281011606 WHG domain; Region: WHG; pfam13305 931281011607 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 931281011608 active site 931281011609 DNA polymerase III subunit delta'; Validated; Region: PRK05707 931281011610 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 931281011611 Walker A motif; other site 931281011612 ATP binding site [chemical binding]; other site 931281011613 Walker B motif; other site 931281011614 arginine finger; other site 931281011615 thymidylate kinase; Validated; Region: tmk; PRK00698 931281011616 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 931281011617 TMP-binding site; other site 931281011618 ATP-binding site [chemical binding]; other site 931281011619 YceG-like family; Region: YceG; pfam02618 931281011620 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 931281011621 dimerization interface [polypeptide binding]; other site 931281011622 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 931281011623 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 931281011624 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281011625 catalytic residue [active] 931281011626 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 931281011627 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 931281011628 dimer interface [polypeptide binding]; other site 931281011629 active site 931281011630 acyl carrier protein; Provisional; Region: acpP; PRK00982 931281011631 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 931281011632 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 931281011633 NAD(P) binding site [chemical binding]; other site 931281011634 homotetramer interface [polypeptide binding]; other site 931281011635 homodimer interface [polypeptide binding]; other site 931281011636 active site 931281011637 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 931281011638 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 931281011639 putative phosphate acyltransferase; Provisional; Region: PRK05331 931281011640 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 931281011641 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 931281011642 Maf-like protein; Region: Maf; pfam02545 931281011643 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 931281011644 active site 931281011645 dimer interface [polypeptide binding]; other site 931281011646 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 931281011647 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 931281011648 tandem repeat interface [polypeptide binding]; other site 931281011649 oligomer interface [polypeptide binding]; other site 931281011650 active site residues [active] 931281011651 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cl07944 931281011652 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 931281011653 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 931281011654 motif II; other site 931281011655 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 931281011656 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 931281011657 RNA binding surface [nucleotide binding]; other site 931281011658 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 931281011659 active site 931281011660 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 931281011661 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 931281011662 homodimer interface [polypeptide binding]; other site 931281011663 oligonucleotide binding site [chemical binding]; other site 931281011664 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 931281011665 FAD binding domain; Region: FAD_binding_4; pfam01565 931281011666 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 931281011667 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 931281011668 Low molecular weight phosphatase family; Region: LMWPc; cd00115 931281011669 active site 931281011670 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 931281011671 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 931281011672 Ligand binding site; other site 931281011673 oligomer interface; other site 931281011674 Uncharacterized conserved protein [Function unknown]; Region: COG2835 931281011675 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 931281011676 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 931281011677 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 931281011678 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 931281011679 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 931281011680 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 931281011681 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 931281011682 Competence protein; Region: Competence; pfam03772 931281011683 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 931281011684 inner membrane transport permease; Provisional; Region: PRK15066 931281011685 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 931281011686 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 931281011687 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281011688 Walker A/P-loop; other site 931281011689 ATP binding site [chemical binding]; other site 931281011690 Q-loop/lid; other site 931281011691 ABC transporter signature motif; other site 931281011692 Walker B; other site 931281011693 D-loop; other site 931281011694 H-loop/switch region; other site 931281011695 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 931281011696 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 931281011697 putative C-terminal domain interface [polypeptide binding]; other site 931281011698 putative GSH binding site (G-site) [chemical binding]; other site 931281011699 putative dimer interface [polypeptide binding]; other site 931281011700 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 931281011701 putative N-terminal domain interface [polypeptide binding]; other site 931281011702 putative dimer interface [polypeptide binding]; other site 931281011703 putative substrate binding pocket (H-site) [chemical binding]; other site 931281011704 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 931281011705 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 931281011706 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 931281011707 active site 931281011708 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 931281011709 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 931281011710 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 931281011711 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 931281011712 GAF domain; Region: GAF_2; pfam13185 931281011713 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 931281011714 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 931281011715 Walker A motif; other site 931281011716 ATP binding site [chemical binding]; other site 931281011717 Walker B motif; other site 931281011718 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 931281011719 dimer interface [polypeptide binding]; other site 931281011720 phosphorylation site [posttranslational modification] 931281011721 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 931281011722 ATP binding site [chemical binding]; other site 931281011723 Mg2+ binding site [ion binding]; other site 931281011724 G-X-G motif; other site 931281011725 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 931281011726 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281011727 active site 931281011728 phosphorylation site [posttranslational modification] 931281011729 intermolecular recognition site; other site 931281011730 dimerization interface [polypeptide binding]; other site 931281011731 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 931281011732 catalytic residues [active] 931281011733 dimer interface [polypeptide binding]; other site 931281011734 methionine sulfoxide reductase B; Provisional; Region: PRK00222 931281011735 SelR domain; Region: SelR; pfam01641 931281011736 aminotransferase AlaT; Validated; Region: PRK09265 931281011737 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 931281011738 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281011739 homodimer interface [polypeptide binding]; other site 931281011740 catalytic residue [active] 931281011741 heat shock protein HtpX; Provisional; Region: PRK05457 931281011742 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 931281011743 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 931281011744 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 931281011745 putative active site [active] 931281011746 metal binding site [ion binding]; metal-binding site 931281011747 helicase 45; Provisional; Region: PTZ00424 931281011748 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 931281011749 ATP binding site [chemical binding]; other site 931281011750 Mg++ binding site [ion binding]; other site 931281011751 motif III; other site 931281011752 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 931281011753 nucleotide binding region [chemical binding]; other site 931281011754 ATP-binding site [chemical binding]; other site 931281011755 DbpA RNA binding domain; Region: DbpA; pfam03880 931281011756 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 931281011757 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 931281011758 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 931281011759 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281011760 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281011761 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 931281011762 dimerization interface [polypeptide binding]; other site 931281011763 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 931281011764 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281011765 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281011766 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 931281011767 putative effector binding pocket; other site 931281011768 dimerization interface [polypeptide binding]; other site 931281011769 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 931281011770 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 931281011771 dimerization interface [polypeptide binding]; other site 931281011772 putative Zn2+ binding site [ion binding]; other site 931281011773 putative DNA binding site [nucleotide binding]; other site 931281011774 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 931281011775 elongation factor P; Validated; Region: PRK00529 931281011776 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 931281011777 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 931281011778 RNA binding site [nucleotide binding]; other site 931281011779 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 931281011780 RNA binding site [nucleotide binding]; other site 931281011781 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 931281011782 conserved hypothetical protein, PP_1857 family; Region: efp_adjacent_2; TIGR03837 931281011783 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 931281011784 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 931281011785 putative effector binding pocket; other site 931281011786 dimerization interface [polypeptide binding]; other site 931281011787 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 931281011788 classical (c) SDRs; Region: SDR_c; cd05233 931281011789 NAD(P) binding site [chemical binding]; other site 931281011790 active site 931281011791 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281011792 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281011793 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_3; cd08436 931281011794 putative dimerization interface [polypeptide binding]; other site 931281011795 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 931281011796 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 931281011797 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 931281011798 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 931281011799 N-terminal plug; other site 931281011800 ligand-binding site [chemical binding]; other site 931281011801 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 931281011802 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 931281011803 substrate binding site [chemical binding]; other site 931281011804 oxyanion hole (OAH) forming residues; other site 931281011805 trimer interface [polypeptide binding]; other site 931281011806 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 931281011807 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 931281011808 putative acyl-acceptor binding pocket; other site 931281011809 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 931281011810 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 931281011811 oligomer interface [polypeptide binding]; other site 931281011812 metal binding site [ion binding]; metal-binding site 931281011813 metal binding site [ion binding]; metal-binding site 931281011814 putative Cl binding site [ion binding]; other site 931281011815 basic sphincter; other site 931281011816 hydrophobic gate; other site 931281011817 periplasmic entrance; other site 931281011818 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 931281011819 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 931281011820 catalytic triad [active] 931281011821 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 931281011822 Cytochrome c; Region: Cytochrom_C; pfam00034 931281011823 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 931281011824 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 931281011825 Sulfatase; Region: Sulfatase; pfam00884 931281011826 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 931281011827 ZIP Zinc transporter; Region: Zip; pfam02535 931281011828 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 931281011829 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 931281011830 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 931281011831 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 931281011832 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 931281011833 Cupin domain; Region: Cupin_2; cl17218 931281011834 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 931281011835 putative substrate translocation pore; other site 931281011836 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 931281011837 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 931281011838 Tetramer interface [polypeptide binding]; other site 931281011839 active site 931281011840 FMN-binding site [chemical binding]; other site 931281011841 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 931281011842 HemK family putative methylases; Region: hemK_fam; TIGR00536 931281011843 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 931281011844 S-adenosylmethionine binding site [chemical binding]; other site 931281011845 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 931281011846 Isochorismatase family; Region: Isochorismatase; pfam00857 931281011847 catalytic triad [active] 931281011848 conserved cis-peptide bond; other site 931281011849 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 931281011850 Smr domain; Region: Smr; pfam01713 931281011851 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 931281011852 GTP cyclohydrolase I; Provisional; Region: PLN03044 931281011853 active site 931281011854 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 931281011855 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 931281011856 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 931281011857 putative C-terminal domain interface [polypeptide binding]; other site 931281011858 putative GSH binding site (G-site) [chemical binding]; other site 931281011859 putative dimer interface [polypeptide binding]; other site 931281011860 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 931281011861 N-terminal domain interface [polypeptide binding]; other site 931281011862 dimer interface [polypeptide binding]; other site 931281011863 substrate binding pocket (H-site) [chemical binding]; other site 931281011864 benzoate transporter; Region: benE; TIGR00843 931281011865 Benzoate membrane transport protein; Region: BenE; pfam03594 931281011866 HAMP domain; Region: HAMP; pfam00672 931281011867 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 931281011868 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 931281011869 dimer interface [polypeptide binding]; other site 931281011870 putative CheW interface [polypeptide binding]; other site 931281011871 short chain dehydrogenase; Provisional; Region: PRK06172 931281011872 classical (c) SDRs; Region: SDR_c; cd05233 931281011873 NAD(P) binding site [chemical binding]; other site 931281011874 active site 931281011875 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 931281011876 Prostaglandin dehydrogenases; Region: PGDH; cd05288 931281011877 NAD(P) binding site [chemical binding]; other site 931281011878 substrate binding site [chemical binding]; other site 931281011879 dimer interface [polypeptide binding]; other site 931281011880 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 931281011881 active site 931281011882 dimer interface [polypeptide binding]; other site 931281011883 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 931281011884 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 931281011885 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 931281011886 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 931281011887 active site 931281011888 homodimer interface [polypeptide binding]; other site 931281011889 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 931281011890 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 931281011891 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281011892 ABC transporter signature motif; other site 931281011893 Walker B; other site 931281011894 D-loop; other site 931281011895 H-loop/switch region; other site 931281011896 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 931281011897 Chain length determinant protein; Region: Wzz; cl15801 931281011898 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 931281011899 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 931281011900 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 931281011901 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 931281011902 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 931281011903 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 931281011904 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 931281011905 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 931281011906 Ligand binding site; other site 931281011907 oligomer interface; other site 931281011908 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 931281011909 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 931281011910 active site 931281011911 motif I; other site 931281011912 motif II; other site 931281011913 KpsF/GutQ family protein; Region: kpsF; TIGR00393 931281011914 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 931281011915 putative active site [active] 931281011916 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 931281011917 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 931281011918 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 931281011919 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 931281011920 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 931281011921 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 931281011922 NAD(P) binding site [chemical binding]; other site 931281011923 active site 931281011924 Sulfatase; Region: Sulfatase; pfam00884 931281011925 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 931281011926 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 931281011927 Coenzyme A binding pocket [chemical binding]; other site 931281011928 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 931281011929 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 931281011930 Transposase IS200 like; Region: Y1_Tnp; pfam01797 931281011931 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 931281011932 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 931281011933 substrate-cofactor binding pocket; other site 931281011934 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281011935 catalytic residue [active] 931281011936 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 931281011937 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 931281011938 active site 931281011939 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 931281011940 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 931281011941 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 931281011942 enoyl reductase of polyketide synthase; Region: enoyl_red; cd05195 931281011943 Enoylreductase; Region: PKS_ER; smart00829 931281011944 NAD(P) binding site [chemical binding]; other site 931281011945 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 931281011946 KR domain; Region: KR; pfam08659 931281011947 putative NADP binding site [chemical binding]; other site 931281011948 active site 931281011949 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 931281011950 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 931281011951 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 931281011952 substrate binding site; other site 931281011953 tetramer interface; other site 931281011954 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 931281011955 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 931281011956 NADP binding site [chemical binding]; other site 931281011957 active site 931281011958 putative substrate binding site [chemical binding]; other site 931281011959 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 931281011960 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 931281011961 NAD binding site [chemical binding]; other site 931281011962 substrate binding site [chemical binding]; other site 931281011963 homodimer interface [polypeptide binding]; other site 931281011964 active site 931281011965 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 931281011966 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 931281011967 NAD(P) binding site [chemical binding]; other site 931281011968 homodimer interface [polypeptide binding]; other site 931281011969 substrate binding site [chemical binding]; other site 931281011970 active site 931281011971 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 931281011972 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 931281011973 putative catalytic motif [active] 931281011974 putative substrate binding site [chemical binding]; other site 931281011975 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 931281011976 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 931281011977 putative NAD(P) binding site [chemical binding]; other site 931281011978 active site 931281011979 putative substrate binding site [chemical binding]; other site 931281011980 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 931281011981 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 931281011982 putative ADP-binding pocket [chemical binding]; other site 931281011983 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 931281011984 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 931281011985 NAD(P) binding site [chemical binding]; other site 931281011986 homodimer interface [polypeptide binding]; other site 931281011987 substrate binding site [chemical binding]; other site 931281011988 active site 931281011989 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 931281011990 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 931281011991 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 931281011992 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 931281011993 active site 931281011994 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 931281011995 Chain length determinant protein; Region: Wzz; cl15801 931281011996 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 931281011997 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 931281011998 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 931281011999 Beta-Casp domain; Region: Beta-Casp; smart01027 931281012000 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 931281012001 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 931281012002 IHF dimer interface [polypeptide binding]; other site 931281012003 IHF - DNA interface [nucleotide binding]; other site 931281012004 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14951 931281012005 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 931281012006 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 931281012007 RNA binding site [nucleotide binding]; other site 931281012008 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 931281012009 RNA binding site [nucleotide binding]; other site 931281012010 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 931281012011 RNA binding site [nucleotide binding]; other site 931281012012 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 931281012013 RNA binding site [nucleotide binding]; other site 931281012014 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 931281012015 RNA binding site [nucleotide binding]; other site 931281012016 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 931281012017 RNA binding site [nucleotide binding]; other site 931281012018 cytidylate kinase; Provisional; Region: cmk; PRK00023 931281012019 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 931281012020 CMP-binding site; other site 931281012021 The sites determining sugar specificity; other site 931281012022 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 931281012023 prephenate dehydrogenase; Validated; Region: PRK08507 931281012024 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 931281012025 hinge; other site 931281012026 active site 931281012027 Chorismate mutase type II; Region: CM_2; cl00693 931281012028 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 931281012029 Prephenate dehydratase; Region: PDT; pfam00800 931281012030 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 931281012031 putative L-Phe binding site [chemical binding]; other site 931281012032 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 931281012033 homodimer interface [polypeptide binding]; other site 931281012034 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281012035 substrate-cofactor binding pocket; other site 931281012036 catalytic residue [active] 931281012037 DNA gyrase subunit A; Validated; Region: PRK05560 931281012038 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 931281012039 CAP-like domain; other site 931281012040 active site 931281012041 primary dimer interface [polypeptide binding]; other site 931281012042 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 931281012043 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 931281012044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 931281012045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 931281012046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 931281012047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 931281012048 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 931281012049 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 931281012050 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 931281012051 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 931281012052 S-adenosylmethionine binding site [chemical binding]; other site 931281012053 phosphoglycolate phosphatase; Provisional; Region: PRK13222 931281012054 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 931281012055 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 931281012056 motif II; other site 931281012057 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 931281012058 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 931281012059 NAD(P) binding site [chemical binding]; other site 931281012060 active site 931281012061 Pyrroloquinoline quinone (Coenzyme PQQ) biosynthesis protein C [Coenzyme metabolism]; Region: COG5424 931281012062 PAS domain S-box; Region: sensory_box; TIGR00229 931281012063 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 931281012064 putative active site [active] 931281012065 heme pocket [chemical binding]; other site 931281012066 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 931281012067 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281012068 metal binding site [ion binding]; metal-binding site 931281012069 active site 931281012070 I-site; other site 931281012071 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 931281012072 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 931281012073 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281012074 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 931281012075 Walker A/P-loop; other site 931281012076 ATP binding site [chemical binding]; other site 931281012077 Q-loop/lid; other site 931281012078 ABC transporter signature motif; other site 931281012079 Walker B; other site 931281012080 D-loop; other site 931281012081 H-loop/switch region; other site 931281012082 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 931281012083 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 931281012084 catalytic residues [active] 931281012085 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 931281012086 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 931281012087 active site residue [active] 931281012088 BolA-like protein; Region: BolA; pfam01722 931281012089 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 931281012090 fumarate hydratase; Provisional; Region: PRK12425 931281012091 Class II fumarases; Region: Fumarase_classII; cd01362 931281012092 active site 931281012093 tetramer interface [polypeptide binding]; other site 931281012094 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 931281012095 EamA-like transporter family; Region: EamA; pfam00892 931281012096 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 931281012097 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 931281012098 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 931281012099 potential frameshift: common BLAST hit: gi|26988482|ref|NP_743907.1| 5-methylaminomethyl-2-thiouridine methyltransferase 931281012100 Uncharacterized conserved protein [Function unknown]; Region: COG4121 931281012101 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 931281012102 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 931281012103 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 931281012104 active site 931281012105 dimer interface [polypeptide binding]; other site 931281012106 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 931281012107 Ligand Binding Site [chemical binding]; other site 931281012108 Molecular Tunnel; other site 931281012109 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 931281012110 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 931281012111 Coenzyme A binding pocket [chemical binding]; other site 931281012112 ATP-grasp domain; Region: ATP-grasp_4; cl17255 931281012113 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 931281012114 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 931281012115 putative oligomer interface [polypeptide binding]; other site 931281012116 putative active site [active] 931281012117 metal binding site [ion binding]; metal-binding site 931281012118 hypothetical protein; Provisional; Region: PRK00304 931281012119 Global regulator protein family; Region: CsrA; pfam02599 931281012120 short chain dehydrogenase; Provisional; Region: PRK05650 931281012121 classical (c) SDRs; Region: SDR_c; cd05233 931281012122 NAD(P) binding site [chemical binding]; other site 931281012123 active site 931281012124 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 931281012125 putative fimbrial protein TcfA; Provisional; Region: PRK15308 931281012126 fimbrial outer membrane usher protein TcfC; Provisional; Region: PRK15310 931281012127 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 931281012128 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 931281012129 Na binding site [ion binding]; other site 931281012130 Protein of unknown function, DUF485; Region: DUF485; pfam04341 931281012131 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 931281012132 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 931281012133 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 931281012134 VacJ like lipoprotein; Region: VacJ; cl01073 931281012135 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 931281012136 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 931281012137 active site 931281012138 nucleophile elbow; other site 931281012139 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 931281012140 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 931281012141 putative acyl-acceptor binding pocket; other site 931281012142 septum formation inhibitor; Reviewed; Region: minC; PRK00339 931281012143 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 931281012144 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 931281012145 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 931281012146 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 931281012147 Switch I; other site 931281012148 Switch II; other site 931281012149 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 931281012150 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 931281012151 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 931281012152 active site 931281012153 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 931281012154 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 931281012155 active site 931281012156 metal binding site [ion binding]; metal-binding site 931281012157 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 931281012158 Mechanosensitive ion channel; Region: MS_channel; pfam00924 931281012159 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281012160 transcriptional regulator protein; Region: phnR; TIGR03337 931281012161 DNA-binding site [nucleotide binding]; DNA binding site 931281012162 UTRA domain; Region: UTRA; pfam07702 931281012163 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 931281012164 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 931281012165 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 931281012166 Sulfatase; Region: Sulfatase; cl17466 931281012167 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 931281012168 dimer interface [polypeptide binding]; other site 931281012169 conserved gate region; other site 931281012170 putative PBP binding loops; other site 931281012171 ABC-ATPase subunit interface; other site 931281012172 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 931281012173 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 931281012174 dimer interface [polypeptide binding]; other site 931281012175 conserved gate region; other site 931281012176 putative PBP binding loops; other site 931281012177 ABC-ATPase subunit interface; other site 931281012178 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 931281012179 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281012180 Walker A/P-loop; other site 931281012181 ATP binding site [chemical binding]; other site 931281012182 Q-loop/lid; other site 931281012183 ABC transporter signature motif; other site 931281012184 Walker B; other site 931281012185 D-loop; other site 931281012186 H-loop/switch region; other site 931281012187 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 931281012188 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 931281012189 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 931281012190 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 931281012191 NAD(P) binding site [chemical binding]; other site 931281012192 carboxy-terminal protease; Provisional; Region: PRK11186 931281012193 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 931281012194 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 931281012195 protein binding site [polypeptide binding]; other site 931281012196 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 931281012197 Catalytic dyad [active] 931281012198 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 931281012199 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 931281012200 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 931281012201 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 931281012202 salt bridge; other site 931281012203 non-specific DNA binding site [nucleotide binding]; other site 931281012204 sequence-specific DNA binding site [nucleotide binding]; other site 931281012205 Uncharacterized conserved protein [Function unknown]; Region: COG3339 931281012206 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 931281012207 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 931281012208 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 931281012209 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 931281012210 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281012211 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 931281012212 dimerization interface [polypeptide binding]; other site 931281012213 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 931281012214 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281012215 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 931281012216 D-galactonate transporter; Region: 2A0114; TIGR00893 931281012217 putative substrate translocation pore; other site 931281012218 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 931281012219 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 931281012220 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 931281012221 classical (c) SDRs; Region: SDR_c; cd05233 931281012222 NAD(P) binding site [chemical binding]; other site 931281012223 active site 931281012224 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 931281012225 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 931281012226 putative ligand binding site [chemical binding]; other site 931281012227 NAD binding site [chemical binding]; other site 931281012228 catalytic site [active] 931281012229 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 931281012230 nitrite reductase subunit NirD; Provisional; Region: PRK14989 931281012231 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 931281012232 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 931281012233 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 931281012234 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 931281012235 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 931281012236 [4Fe-4S] binding site [ion binding]; other site 931281012237 molybdopterin cofactor binding site; other site 931281012238 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 931281012239 molybdopterin cofactor binding site; other site 931281012240 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 931281012241 Flavodoxin; Region: Flavodoxin_1; pfam00258 931281012242 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 931281012243 FAD binding pocket [chemical binding]; other site 931281012244 FAD binding motif [chemical binding]; other site 931281012245 catalytic residues [active] 931281012246 NAD binding pocket [chemical binding]; other site 931281012247 phosphate binding motif [ion binding]; other site 931281012248 beta-alpha-beta structure motif; other site 931281012249 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 931281012250 active site 931281012251 recombination associated protein; Reviewed; Region: rdgC; PRK00321 931281012252 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 931281012253 lysophospholipid transporter LplT; Provisional; Region: PRK11195 931281012254 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 931281012255 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 931281012256 putative acyl-acceptor binding pocket; other site 931281012257 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 931281012258 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 931281012259 active site 931281012260 benzoate transport; Region: 2A0115; TIGR00895 931281012261 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 931281012262 putative substrate translocation pore; other site 931281012263 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 931281012264 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281012265 DNA-binding site [nucleotide binding]; DNA binding site 931281012266 UTRA domain; Region: UTRA; pfam07702 931281012267 Major Facilitator Superfamily; Region: MFS_1; pfam07690 931281012268 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 931281012269 putative substrate translocation pore; other site 931281012270 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 931281012271 Na binding site [ion binding]; other site 931281012272 PAS domain; Region: PAS; smart00091 931281012273 PAS fold; Region: PAS_7; pfam12860 931281012274 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 931281012275 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 931281012276 dimer interface [polypeptide binding]; other site 931281012277 phosphorylation site [posttranslational modification] 931281012278 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 931281012279 ATP binding site [chemical binding]; other site 931281012280 Mg2+ binding site [ion binding]; other site 931281012281 G-X-G motif; other site 931281012282 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 931281012283 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281012284 active site 931281012285 phosphorylation site [posttranslational modification] 931281012286 intermolecular recognition site; other site 931281012287 dimerization interface [polypeptide binding]; other site 931281012288 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 931281012289 RmuC family; Region: RmuC; pfam02646 931281012290 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 931281012291 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281012292 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281012293 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 931281012294 putative effector binding pocket; other site 931281012295 dimerization interface [polypeptide binding]; other site 931281012296 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 931281012297 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 931281012298 catalytic residues [active] 931281012299 dimer interface [polypeptide binding]; other site 931281012300 Major Facilitator Superfamily; Region: MFS_1; pfam07690 931281012301 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 931281012302 Transcriptional regulators [Transcription]; Region: MarR; COG1846 931281012303 MarR family; Region: MarR_2; pfam12802 931281012304 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 931281012305 cobalamin synthase; Reviewed; Region: cobS; PRK00235 931281012306 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 931281012307 catalytic core [active] 931281012308 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 931281012309 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 931281012310 putative dimer interface [polypeptide binding]; other site 931281012311 active site pocket [active] 931281012312 putative cataytic base [active] 931281012313 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 931281012314 homotrimer interface [polypeptide binding]; other site 931281012315 Walker A motif; other site 931281012316 GTP binding site [chemical binding]; other site 931281012317 cobyric acid synthase; Provisional; Region: PRK00784 931281012318 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 931281012319 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 931281012320 catalytic triad [active] 931281012321 threonine-phosphate decarboxylase; Reviewed; Region: PRK05664 931281012322 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 931281012323 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 931281012324 catalytic residue [active] 931281012325 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 931281012326 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 931281012327 putative FMN binding site [chemical binding]; other site 931281012328 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 931281012329 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 931281012330 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 931281012331 catalytic triad [active] 931281012332 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 931281012333 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 931281012334 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 931281012335 Walker A motif; other site 931281012336 homodimer interface [polypeptide binding]; other site 931281012337 ATP binding site [chemical binding]; other site 931281012338 hydroxycobalamin binding site [chemical binding]; other site 931281012339 Walker B motif; other site 931281012340 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 931281012341 NlpC/P60 family; Region: NLPC_P60; pfam00877 931281012342 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 931281012343 NlpC/P60 family; Region: NLPC_P60; pfam00877 931281012344 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 931281012345 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 931281012346 Walker A motif; other site 931281012347 ATP binding site [chemical binding]; other site 931281012348 Walker B motif; other site 931281012349 arginine finger; other site 931281012350 Domain of unknown function DUF20; Region: UPF0118; pfam01594 931281012351 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 931281012352 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 931281012353 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 931281012354 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 931281012355 dimerization interface [polypeptide binding]; other site 931281012356 putative ATP binding site [chemical binding]; other site 931281012357 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 931281012358 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 931281012359 active site 931281012360 substrate binding site [chemical binding]; other site 931281012361 cosubstrate binding site; other site 931281012362 catalytic site [active] 931281012363 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 931281012364 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 931281012365 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 931281012366 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 931281012367 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 931281012368 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 931281012369 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 931281012370 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 931281012371 homodimer interface [polypeptide binding]; other site 931281012372 metal binding site [ion binding]; metal-binding site 931281012373 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 931281012374 homodimer interface [polypeptide binding]; other site 931281012375 active site 931281012376 putative chemical substrate binding site [chemical binding]; other site 931281012377 metal binding site [ion binding]; metal-binding site 931281012378 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 931281012379 HD domain; Region: HD_4; pfam13328 931281012380 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 931281012381 synthetase active site [active] 931281012382 NTP binding site [chemical binding]; other site 931281012383 metal binding site [ion binding]; metal-binding site 931281012384 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 931281012385 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 931281012386 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 931281012387 TRAM domain; Region: TRAM; pfam01938 931281012388 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 931281012389 S-adenosylmethionine binding site [chemical binding]; other site 931281012390 cysteine synthase B; Region: cysM; TIGR01138 931281012391 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 931281012392 dimer interface [polypeptide binding]; other site 931281012393 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281012394 catalytic residue [active] 931281012395 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 931281012396 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 931281012397 dimerization interface [polypeptide binding]; other site 931281012398 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 931281012399 dimer interface [polypeptide binding]; other site 931281012400 phosphorylation site [posttranslational modification] 931281012401 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 931281012402 ATP binding site [chemical binding]; other site 931281012403 Mg2+ binding site [ion binding]; other site 931281012404 G-X-G motif; other site 931281012405 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 931281012406 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281012407 active site 931281012408 phosphorylation site [posttranslational modification] 931281012409 intermolecular recognition site; other site 931281012410 dimerization interface [polypeptide binding]; other site 931281012411 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 931281012412 DNA binding site [nucleotide binding] 931281012413 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 931281012414 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 931281012415 dimerization interface [polypeptide binding]; other site 931281012416 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 931281012417 dimer interface [polypeptide binding]; other site 931281012418 phosphorylation site [posttranslational modification] 931281012419 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 931281012420 ATP binding site [chemical binding]; other site 931281012421 Mg2+ binding site [ion binding]; other site 931281012422 G-X-G motif; other site 931281012423 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281012424 active site 931281012425 phosphorylation site [posttranslational modification] 931281012426 intermolecular recognition site; other site 931281012427 dimerization interface [polypeptide binding]; other site 931281012428 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 931281012429 putative binding surface; other site 931281012430 active site 931281012431 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 931281012432 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 931281012433 putative ligand binding site [chemical binding]; other site 931281012434 putative NAD binding site [chemical binding]; other site 931281012435 catalytic site [active] 931281012436 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 931281012437 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 931281012438 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 931281012439 catalytic residues [active] 931281012440 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 931281012441 ArsC family; Region: ArsC; pfam03960 931281012442 catalytic residues [active] 931281012443 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 931281012444 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 931281012445 Predicted membrane protein [Function unknown]; Region: COG3308 931281012446 3-methyladenine DNA glycosylase [DNA replication, recombination, and repair]; Region: Tag; COG2818 931281012447 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 931281012448 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 931281012449 Ligand Binding Site [chemical binding]; other site 931281012450 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 931281012451 hypothetical protein; Provisional; Region: PRK04860 931281012452 SprT homologues; Region: SprT; cl01182 931281012453 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 931281012454 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 931281012455 FAD binding pocket [chemical binding]; other site 931281012456 FAD binding motif [chemical binding]; other site 931281012457 phosphate binding motif [ion binding]; other site 931281012458 beta-alpha-beta structure motif; other site 931281012459 NAD binding pocket [chemical binding]; other site 931281012460 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281012461 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281012462 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 931281012463 putative dimerization interface [polypeptide binding]; other site 931281012464 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 931281012465 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 931281012466 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281012467 active site 931281012468 phosphorylation site [posttranslational modification] 931281012469 intermolecular recognition site; other site 931281012470 dimerization interface [polypeptide binding]; other site 931281012471 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 931281012472 DNA binding residues [nucleotide binding] 931281012473 dimerization interface [polypeptide binding]; other site 931281012474 Uncharacterized conserved protein [Function unknown]; Region: COG3148 931281012475 Domain of unknown function (DUF4146); Region: DUF4146; pfam13652 931281012476 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 931281012477 recombination regulator RecX; Reviewed; Region: recX; PRK00117 931281012478 recombinase A; Provisional; Region: recA; PRK09354 931281012479 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 931281012480 hexamer interface [polypeptide binding]; other site 931281012481 Walker A motif; other site 931281012482 ATP binding site [chemical binding]; other site 931281012483 Walker B motif; other site 931281012484 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 931281012485 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 931281012486 MutS domain I; Region: MutS_I; pfam01624 931281012487 MutS domain II; Region: MutS_II; pfam05188 931281012488 MutS domain III; Region: MutS_III; pfam05192 931281012489 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 931281012490 Walker A/P-loop; other site 931281012491 ATP binding site [chemical binding]; other site 931281012492 Q-loop/lid; other site 931281012493 ABC transporter signature motif; other site 931281012494 Walker B; other site 931281012495 D-loop; other site 931281012496 H-loop/switch region; other site 931281012497 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 931281012498 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 931281012499 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 931281012500 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 931281012501 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 931281012502 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 931281012503 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 931281012504 DNA binding residues [nucleotide binding] 931281012505 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 931281012506 Peptidase family M23; Region: Peptidase_M23; pfam01551 931281012507 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 931281012508 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 931281012509 S-adenosylmethionine binding site [chemical binding]; other site 931281012510 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 931281012511 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 931281012512 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 931281012513 Permutation of conserved domain; other site 931281012514 active site 931281012515 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 931281012516 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 931281012517 homotrimer interaction site [polypeptide binding]; other site 931281012518 zinc binding site [ion binding]; other site 931281012519 CDP-binding sites; other site 931281012520 S-formylglutathione hydrolase; Region: PLN02442 931281012521 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 931281012522 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 931281012523 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 931281012524 substrate binding site [chemical binding]; other site 931281012525 catalytic Zn binding site [ion binding]; other site 931281012526 NAD binding site [chemical binding]; other site 931281012527 structural Zn binding site [ion binding]; other site 931281012528 dimer interface [polypeptide binding]; other site 931281012529 LysR family transcriptional regulator; Provisional; Region: PRK14997 931281012530 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281012531 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like_1; cd08470 931281012532 putative effector binding pocket; other site 931281012533 putative dimerization interface [polypeptide binding]; other site 931281012534 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 931281012535 substrate binding site; other site 931281012536 dimer interface; other site 931281012537 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 931281012538 Septum formation initiator; Region: DivIC; cl17659 931281012539 enolase; Provisional; Region: eno; PRK00077 931281012540 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 931281012541 dimer interface [polypeptide binding]; other site 931281012542 metal binding site [ion binding]; metal-binding site 931281012543 substrate binding pocket [chemical binding]; other site 931281012544 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 931281012545 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 931281012546 CTP synthetase; Validated; Region: pyrG; PRK05380 931281012547 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 931281012548 Catalytic site [active] 931281012549 active site 931281012550 UTP binding site [chemical binding]; other site 931281012551 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 931281012552 active site 931281012553 putative oxyanion hole; other site 931281012554 catalytic triad [active] 931281012555 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 931281012556 Ligand Binding Site [chemical binding]; other site 931281012557 TilS substrate binding domain; Region: TilS; pfam09179 931281012558 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 931281012559 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 931281012560 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 931281012561 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 931281012562 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 931281012563 putative active site [active] 931281012564 putative PHP Thumb interface [polypeptide binding]; other site 931281012565 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 931281012566 generic binding surface II; other site 931281012567 generic binding surface I; other site 931281012568 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 931281012569 RNA/DNA hybrid binding site [nucleotide binding]; other site 931281012570 active site 931281012571 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 931281012572 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 931281012573 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 931281012574 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 931281012575 active site 931281012576 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 931281012577 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 931281012578 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 931281012579 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 931281012580 trimer interface [polypeptide binding]; other site 931281012581 active site 931281012582 UDP-GlcNAc binding site [chemical binding]; other site 931281012583 lipid binding site [chemical binding]; lipid-binding site 931281012584 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 931281012585 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 931281012586 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 931281012587 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 931281012588 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 931281012589 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 931281012590 Surface antigen; Region: Bac_surface_Ag; pfam01103 931281012591 zinc metallopeptidase RseP; Provisional; Region: PRK10779 931281012592 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 931281012593 active site 931281012594 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 931281012595 protein binding site [polypeptide binding]; other site 931281012596 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 931281012597 protein binding site [polypeptide binding]; other site 931281012598 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 931281012599 putative substrate binding region [chemical binding]; other site 931281012600 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 931281012601 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 931281012602 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 931281012603 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 931281012604 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 931281012605 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 931281012606 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 931281012607 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 931281012608 catalytic residue [active] 931281012609 putative FPP diphosphate binding site; other site 931281012610 putative FPP binding hydrophobic cleft; other site 931281012611 dimer interface [polypeptide binding]; other site 931281012612 putative IPP diphosphate binding site; other site 931281012613 ribosome recycling factor; Reviewed; Region: frr; PRK00083 931281012614 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 931281012615 hinge region; other site 931281012616 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 931281012617 putative nucleotide binding site [chemical binding]; other site 931281012618 uridine monophosphate binding site [chemical binding]; other site 931281012619 homohexameric interface [polypeptide binding]; other site 931281012620 elongation factor Ts; Provisional; Region: tsf; PRK09377 931281012621 UBA/TS-N domain; Region: UBA; pfam00627 931281012622 Elongation factor TS; Region: EF_TS; pfam00889 931281012623 Elongation factor TS; Region: EF_TS; pfam00889 931281012624 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 931281012625 rRNA interaction site [nucleotide binding]; other site 931281012626 S8 interaction site; other site 931281012627 putative laminin-1 binding site; other site 931281012628 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 931281012629 active site 931281012630 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 931281012631 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 931281012632 metal binding triad; other site 931281012633 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 931281012634 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 931281012635 Zn2+ binding site [ion binding]; other site 931281012636 Mg2+ binding site [ion binding]; other site 931281012637 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 931281012638 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 931281012639 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 931281012640 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 931281012641 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281012642 homodimer interface [polypeptide binding]; other site 931281012643 catalytic residue [active] 931281012644 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 931281012645 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 931281012646 ArsC family; Region: ArsC; pfam03960 931281012647 putative catalytic residues [active] 931281012648 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 931281012649 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 931281012650 putative trimer interface [polypeptide binding]; other site 931281012651 putative CoA binding site [chemical binding]; other site 931281012652 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 931281012653 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 931281012654 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 931281012655 catalytic residue [active] 931281012656 Fe-S metabolism associated domain; Region: SufE; cl00951 931281012657 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 931281012658 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 931281012659 putative ATP binding site [chemical binding]; other site 931281012660 putative substrate interface [chemical binding]; other site 931281012661 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 931281012662 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 931281012663 NdvC_like proteins in this family are putative bacterial beta-(1,6)-glucosyltransferase; Region: CESA_NdvC_like; cd06435 931281012664 Ligand binding site; other site 931281012665 DXD motif; other site 931281012666 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 931281012667 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 931281012668 metal binding site [ion binding]; metal-binding site 931281012669 dimer interface [polypeptide binding]; other site 931281012670 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 931281012671 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 931281012672 S-adenosylmethionine binding site [chemical binding]; other site 931281012673 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 931281012674 DNA-binding site [nucleotide binding]; DNA binding site 931281012675 RNA-binding motif; other site 931281012676 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 931281012677 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 931281012678 putative acyl-acceptor binding pocket; other site 931281012679 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 931281012680 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 931281012681 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 931281012682 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 931281012683 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 931281012684 HlyD family secretion protein; Region: HlyD_3; pfam13437 931281012685 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 931281012686 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 931281012687 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 931281012688 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 931281012689 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 931281012690 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 931281012691 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 931281012692 tetramer interface [polypeptide binding]; other site 931281012693 active site 931281012694 Mg2+/Mn2+ binding site [ion binding]; other site 931281012695 Protein of unknown function DUF72; Region: DUF72; cl00777 931281012696 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 931281012697 Glycoprotease family; Region: Peptidase_M22; pfam00814 931281012698 adenylate kinase; Reviewed; Region: adk; PRK00279 931281012699 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 931281012700 AMP-binding site [chemical binding]; other site 931281012701 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 931281012702 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 931281012703 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 931281012704 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 931281012705 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 931281012706 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 931281012707 ligand binding site [chemical binding]; other site 931281012708 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 931281012709 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 931281012710 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 931281012711 conserved hypothetical protein; Region: QEGLA; TIGR02421 931281012712 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 931281012713 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 931281012714 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 931281012715 dimer interface [polypeptide binding]; other site 931281012716 putative anticodon binding site; other site 931281012717 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 931281012718 motif 1; other site 931281012719 active site 931281012720 motif 2; other site 931281012721 motif 3; other site 931281012722 peptide chain release factor 2; Provisional; Region: PRK08787 931281012723 This domain is found in peptide chain release factors; Region: PCRF; smart00937 931281012724 RF-1 domain; Region: RF-1; pfam00472 931281012725 Response regulator receiver domain; Region: Response_reg; pfam00072 931281012726 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281012727 active site 931281012728 phosphorylation site [posttranslational modification] 931281012729 intermolecular recognition site; other site 931281012730 dimerization interface [polypeptide binding]; other site 931281012731 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 931281012732 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281012733 metal binding site [ion binding]; metal-binding site 931281012734 active site 931281012735 I-site; other site 931281012736 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 931281012737 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281012738 active site 931281012739 phosphorylation site [posttranslational modification] 931281012740 intermolecular recognition site; other site 931281012741 CheB methylesterase; Region: CheB_methylest; pfam01339 931281012742 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 931281012743 putative binding surface; other site 931281012744 active site 931281012745 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 931281012746 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 931281012747 ATP binding site [chemical binding]; other site 931281012748 Mg2+ binding site [ion binding]; other site 931281012749 G-X-G motif; other site 931281012750 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 931281012751 Response regulator receiver domain; Region: Response_reg; pfam00072 931281012752 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281012753 active site 931281012754 phosphorylation site [posttranslational modification] 931281012755 intermolecular recognition site; other site 931281012756 dimerization interface [polypeptide binding]; other site 931281012757 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 931281012758 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 931281012759 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 931281012760 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 931281012761 S-adenosylmethionine binding site [chemical binding]; other site 931281012762 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 931281012763 TPR motif; other site 931281012764 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 931281012765 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 931281012766 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 931281012767 dimerization interface [polypeptide binding]; other site 931281012768 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 931281012769 dimer interface [polypeptide binding]; other site 931281012770 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 931281012771 putative CheW interface [polypeptide binding]; other site 931281012772 Protein of unknown function (DUF533); Region: DUF533; pfam04391 931281012773 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 931281012774 putative metal binding site [ion binding]; other site 931281012775 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 931281012776 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 931281012777 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 931281012778 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281012779 Walker A/P-loop; other site 931281012780 ATP binding site [chemical binding]; other site 931281012781 Q-loop/lid; other site 931281012782 ABC transporter signature motif; other site 931281012783 Walker B; other site 931281012784 D-loop; other site 931281012785 H-loop/switch region; other site 931281012786 TOBE domain; Region: TOBE_2; pfam08402 931281012787 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 931281012788 conserved gate region; other site 931281012789 dimer interface [polypeptide binding]; other site 931281012790 putative PBP binding loops; other site 931281012791 ABC-ATPase subunit interface; other site 931281012792 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 931281012793 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 931281012794 dimer interface [polypeptide binding]; other site 931281012795 conserved gate region; other site 931281012796 ABC-ATPase subunit interface; other site 931281012797 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 931281012798 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 931281012799 tetrameric interface [polypeptide binding]; other site 931281012800 NAD binding site [chemical binding]; other site 931281012801 catalytic residues [active] 931281012802 substrate binding site [chemical binding]; other site 931281012803 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 931281012804 HicB family; Region: HicB; pfam05534 931281012805 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 931281012806 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 931281012807 active site 931281012808 FMN binding site [chemical binding]; other site 931281012809 substrate binding site [chemical binding]; other site 931281012810 homotetramer interface [polypeptide binding]; other site 931281012811 catalytic residue [active] 931281012812 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 931281012813 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 931281012814 DHH family; Region: DHH; pfam01368 931281012815 DHHA1 domain; Region: DHHA1; pfam02272 931281012816 YaeQ protein; Region: YaeQ; pfam07152 931281012817 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 931281012818 CoA-transferase family III; Region: CoA_transf_3; pfam02515 931281012819 conserved hypothetical protein; Region: TIGR02285 931281012820 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 931281012821 Response regulator receiver domain; Region: Response_reg; pfam00072 931281012822 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 931281012823 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 931281012824 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281012825 catalytic residue [active] 931281012826 homoserine dehydrogenase; Provisional; Region: PRK06349 931281012827 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 931281012828 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 931281012829 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 931281012830 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 931281012831 dimerization domain [polypeptide binding]; other site 931281012832 dimer interface [polypeptide binding]; other site 931281012833 catalytic residues [active] 931281012834 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 931281012835 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 931281012836 active site 931281012837 Int/Topo IB signature motif; other site 931281012838 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 931281012839 TrkA-N domain; Region: TrkA_N; pfam02254 931281012840 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 931281012841 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 931281012842 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 931281012843 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 931281012844 RimM N-terminal domain; Region: RimM; pfam01782 931281012845 PRC-barrel domain; Region: PRC; pfam05239 931281012846 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 931281012847 signal recognition particle protein; Provisional; Region: PRK10867 931281012848 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 931281012849 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 931281012850 P loop; other site 931281012851 GTP binding site [chemical binding]; other site 931281012852 Signal peptide binding domain; Region: SRP_SPB; pfam02978 931281012853 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 931281012854 Domain of unknown function DUF21; Region: DUF21; pfam01595 931281012855 FOG: CBS domain [General function prediction only]; Region: COG0517 931281012856 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 931281012857 Transporter associated domain; Region: CorC_HlyC; smart01091 931281012858 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 931281012859 metabolite-proton symporter; Region: 2A0106; TIGR00883 931281012860 putative substrate translocation pore; other site 931281012861 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 931281012862 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 931281012863 ATP-grasp domain; Region: ATP-grasp; pfam02222 931281012864 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 931281012865 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 931281012866 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 931281012867 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 931281012868 trimer interface [polypeptide binding]; other site 931281012869 putative metal binding site [ion binding]; other site 931281012870 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 931281012871 putative active site [active] 931281012872 putative CoA binding site [chemical binding]; other site 931281012873 nudix motif; other site 931281012874 metal binding site [ion binding]; metal-binding site 931281012875 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 931281012876 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_4; cd04511 931281012877 nudix motif; other site 931281012878 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 931281012879 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 931281012880 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 931281012881 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 931281012882 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 931281012883 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 931281012884 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 931281012885 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 931281012886 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 931281012887 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 931281012888 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 931281012889 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 931281012890 N-terminal plug; other site 931281012891 ligand-binding site [chemical binding]; other site 931281012892 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 931281012893 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 931281012894 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 931281012895 Trp docking motif [polypeptide binding]; other site 931281012896 putative active site [active] 931281012897 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 931281012898 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 931281012899 Walker A motif; other site 931281012900 ATP binding site [chemical binding]; other site 931281012901 Walker B motif; other site 931281012902 arginine finger; other site 931281012903 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 931281012904 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 931281012905 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 931281012906 active site 931281012907 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 931281012908 S-adenosylmethionine binding site [chemical binding]; other site 931281012909 Methyltransferase domain; Region: Methyltransf_31; pfam13847 931281012910 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 931281012911 S-adenosylmethionine binding site [chemical binding]; other site 931281012912 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 931281012913 active site 931281012914 hydrophilic channel; other site 931281012915 dimerization interface [polypeptide binding]; other site 931281012916 catalytic residues [active] 931281012917 active site lid [active] 931281012918 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 931281012919 Recombination protein O N terminal; Region: RecO_N; pfam11967 931281012920 Recombination protein O C terminal; Region: RecO_C; pfam02565 931281012921 GTPase Era; Reviewed; Region: era; PRK00089 931281012922 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 931281012923 G1 box; other site 931281012924 GTP/Mg2+ binding site [chemical binding]; other site 931281012925 Switch I region; other site 931281012926 G2 box; other site 931281012927 Switch II region; other site 931281012928 G3 box; other site 931281012929 G4 box; other site 931281012930 G5 box; other site 931281012931 KH domain; Region: KH_2; pfam07650 931281012932 ribonuclease III; Reviewed; Region: rnc; PRK00102 931281012933 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 931281012934 dimerization interface [polypeptide binding]; other site 931281012935 active site 931281012936 metal binding site [ion binding]; metal-binding site 931281012937 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 931281012938 dsRNA binding site [nucleotide binding]; other site 931281012939 signal peptidase I; Provisional; Region: PRK10861 931281012940 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 931281012941 Catalytic site [active] 931281012942 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 931281012943 GTP-binding protein LepA; Provisional; Region: PRK05433 931281012944 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 931281012945 G1 box; other site 931281012946 putative GEF interaction site [polypeptide binding]; other site 931281012947 GTP/Mg2+ binding site [chemical binding]; other site 931281012948 Switch I region; other site 931281012949 G2 box; other site 931281012950 G3 box; other site 931281012951 Switch II region; other site 931281012952 G4 box; other site 931281012953 G5 box; other site 931281012954 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 931281012955 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 931281012956 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 931281012957 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 931281012958 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 931281012959 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 931281012960 protein binding site [polypeptide binding]; other site 931281012961 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 931281012962 protein binding site [polypeptide binding]; other site 931281012963 anti-sigma E factor; Provisional; Region: rseB; PRK09455 931281012964 MucB/RseB family; Region: MucB_RseB; pfam03888 931281012965 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 931281012966 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 931281012967 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 931281012968 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 931281012969 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 931281012970 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 931281012971 DNA binding residues [nucleotide binding] 931281012972 L-aspartate oxidase; Provisional; Region: PRK09077 931281012973 L-aspartate oxidase; Provisional; Region: PRK06175 931281012974 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 931281012975 Uncharacterized conserved protein [Function unknown]; Region: COG2938 931281012976 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 931281012977 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 931281012978 HDOD domain; Region: HDOD; pfam08668 931281012979 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 931281012980 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 931281012981 dimerization interface [polypeptide binding]; other site 931281012982 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 931281012983 dimer interface [polypeptide binding]; other site 931281012984 phosphorylation site [posttranslational modification] 931281012985 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 931281012986 ATP binding site [chemical binding]; other site 931281012987 Mg2+ binding site [ion binding]; other site 931281012988 G-X-G motif; other site 931281012989 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 931281012990 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281012991 active site 931281012992 phosphorylation site [posttranslational modification] 931281012993 intermolecular recognition site; other site 931281012994 dimerization interface [polypeptide binding]; other site 931281012995 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 931281012996 DNA binding site [nucleotide binding] 931281012997 outer membrane porin, OprD family; Region: OprD; pfam03573 931281012998 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 931281012999 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 931281013000 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 931281013001 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 931281013002 Putative ammonia monooxygenase; Region: AmoA; pfam05145 931281013003 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 931281013004 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 931281013005 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 931281013006 putative active site [active] 931281013007 putative metal binding site [ion binding]; other site 931281013008 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 931281013009 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 931281013010 ligand binding site [chemical binding]; other site 931281013011 active site 931281013012 UGI interface [polypeptide binding]; other site 931281013013 catalytic site [active] 931281013014 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 931281013015 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 931281013016 substrate binding site [chemical binding]; other site 931281013017 oxyanion hole (OAH) forming residues; other site 931281013018 trimer interface [polypeptide binding]; other site 931281013019 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 931281013020 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 931281013021 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281013022 metal binding site [ion binding]; metal-binding site 931281013023 active site 931281013024 I-site; other site 931281013025 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 931281013026 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 931281013027 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 931281013028 RNA binding surface [nucleotide binding]; other site 931281013029 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 931281013030 active site 931281013031 uracil binding [chemical binding]; other site 931281013032 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 931281013033 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 931281013034 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 931281013035 Sulfate transporter family; Region: Sulfate_transp; pfam00916 931281013036 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 931281013037 Methyltransferase domain; Region: Methyltransf_31; pfam13847 931281013038 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 931281013039 S-adenosylmethionine binding site [chemical binding]; other site 931281013040 Repair protein; Region: Repair_PSII; cl01535 931281013041 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 931281013042 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 931281013043 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 931281013044 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 931281013045 dimer interface [polypeptide binding]; other site 931281013046 phosphorylation site [posttranslational modification] 931281013047 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 931281013048 ATP binding site [chemical binding]; other site 931281013049 Mg2+ binding site [ion binding]; other site 931281013050 G-X-G motif; other site 931281013051 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 931281013052 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281013053 active site 931281013054 phosphorylation site [posttranslational modification] 931281013055 intermolecular recognition site; other site 931281013056 dimerization interface [polypeptide binding]; other site 931281013057 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 931281013058 Walker A motif; other site 931281013059 ATP binding site [chemical binding]; other site 931281013060 Walker B motif; other site 931281013061 arginine finger; other site 931281013062 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 931281013063 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 931281013064 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 931281013065 putative substrate translocation pore; other site 931281013066 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 931281013067 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 931281013068 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 931281013069 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 931281013070 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281013071 hypothetical protein; Provisional; Region: PRK07524 931281013072 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 931281013073 PYR/PP interface [polypeptide binding]; other site 931281013074 dimer interface [polypeptide binding]; other site 931281013075 TPP binding site [chemical binding]; other site 931281013076 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 931281013077 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 931281013078 TPP-binding site [chemical binding]; other site 931281013079 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 931281013080 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281013081 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 931281013082 substrate binding pocket [chemical binding]; other site 931281013083 dimerization interface [polypeptide binding]; other site 931281013084 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 931281013085 NADH(P)-binding; Region: NAD_binding_10; pfam13460 931281013086 NAD binding site [chemical binding]; other site 931281013087 substrate binding site [chemical binding]; other site 931281013088 putative active site [active] 931281013089 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281013090 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281013091 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 931281013092 putative effector binding pocket; other site 931281013093 dimerization interface [polypeptide binding]; other site 931281013094 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 931281013095 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 931281013096 tetramer interface [polypeptide binding]; other site 931281013097 active site 931281013098 Mg2+/Mn2+ binding site [ion binding]; other site 931281013099 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 931281013100 Major Facilitator Superfamily; Region: MFS_1; pfam07690 931281013101 putative substrate translocation pore; other site 931281013102 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 931281013103 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 931281013104 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 931281013105 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 931281013106 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 931281013107 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 931281013108 HlyD family secretion protein; Region: HlyD_3; pfam13437 931281013109 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 931281013110 Protein export membrane protein; Region: SecD_SecF; cl14618 931281013111 Protein export membrane protein; Region: SecD_SecF; cl14618 931281013112 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 931281013113 outer membrane porin, OprD family; Region: OprD; pfam03573 931281013114 Predicted membrane protein [Function unknown]; Region: COG4539 931281013115 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 931281013116 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 931281013117 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 931281013118 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 931281013119 tetramer interface [polypeptide binding]; other site 931281013120 active site 931281013121 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 931281013122 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 931281013123 putative substrate translocation pore; other site 931281013124 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 931281013125 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 931281013126 dimer interface [polypeptide binding]; other site 931281013127 active site 931281013128 benzoate transport; Region: 2A0115; TIGR00895 931281013129 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 931281013130 putative substrate translocation pore; other site 931281013131 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 931281013132 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 931281013133 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 931281013134 Bacterial transcriptional regulator; Region: IclR; pfam01614 931281013135 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 931281013136 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 931281013137 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 931281013138 Cache domain; Region: Cache_1; pfam02743 931281013139 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 931281013140 dimerization interface [polypeptide binding]; other site 931281013141 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 931281013142 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 931281013143 dimer interface [polypeptide binding]; other site 931281013144 putative CheW interface [polypeptide binding]; other site 931281013145 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 931281013146 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 931281013147 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 931281013148 Predicted deacetylase [General function prediction only]; Region: COG3233 931281013149 putative active site [active] 931281013150 putative Zn binding site [ion binding]; other site 931281013151 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 931281013152 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 931281013153 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 931281013154 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 931281013155 putative active site [active] 931281013156 putative substrate binding site [chemical binding]; other site 931281013157 putative cosubstrate binding site; other site 931281013158 catalytic site [active] 931281013159 exonuclease I; Provisional; Region: sbcB; PRK11779 931281013160 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 931281013161 active site 931281013162 catalytic site [active] 931281013163 substrate binding site [chemical binding]; other site 931281013164 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 931281013165 PilZ domain; Region: PilZ; pfam07238 931281013166 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 931281013167 pyruvate kinase; Provisional; Region: PRK05826 931281013168 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 931281013169 domain interfaces; other site 931281013170 active site 931281013171 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 931281013172 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 931281013173 ring oligomerisation interface [polypeptide binding]; other site 931281013174 ATP/Mg binding site [chemical binding]; other site 931281013175 stacking interactions; other site 931281013176 hinge regions; other site 931281013177 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 931281013178 oligomerisation interface [polypeptide binding]; other site 931281013179 mobile loop; other site 931281013180 roof hairpin; other site 931281013181 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 931281013182 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 931281013183 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 931281013184 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 931281013185 Protein of unknown function, DUF481; Region: DUF481; pfam04338 931281013186 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 931281013187 DNA binding site [nucleotide binding] 931281013188 active site 931281013189 muropeptide transporter; Validated; Region: ampG; cl17669 931281013190 muropeptide transporter; Validated; Region: ampG; cl17669 931281013191 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 931281013192 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 931281013193 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 931281013194 Mechanosensitive ion channel; Region: MS_channel; pfam00924 931281013195 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 931281013196 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 931281013197 2-dehydropantoate 2-reductase; Provisional; Region: PRK05708 931281013198 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 931281013199 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 931281013200 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 931281013201 dimerization interface [polypeptide binding]; other site 931281013202 PAS domain; Region: PAS; smart00091 931281013203 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 931281013204 putative active site [active] 931281013205 heme pocket [chemical binding]; other site 931281013206 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 931281013207 dimer interface [polypeptide binding]; other site 931281013208 phosphorylation site [posttranslational modification] 931281013209 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 931281013210 ATP binding site [chemical binding]; other site 931281013211 Mg2+ binding site [ion binding]; other site 931281013212 G-X-G motif; other site 931281013213 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 931281013214 hypothetical protein; Provisional; Region: PRK08999 931281013215 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 931281013216 active site 931281013217 8-oxo-dGMP binding site [chemical binding]; other site 931281013218 nudix motif; other site 931281013219 metal binding site [ion binding]; metal-binding site 931281013220 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 931281013221 thiamine phosphate binding site [chemical binding]; other site 931281013222 active site 931281013223 pyrophosphate binding site [ion binding]; other site 931281013224 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 931281013225 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 931281013226 putative C-terminal domain interface [polypeptide binding]; other site 931281013227 putative GSH binding site (G-site) [chemical binding]; other site 931281013228 putative dimer interface [polypeptide binding]; other site 931281013229 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 931281013230 putative substrate binding pocket (H-site) [chemical binding]; other site 931281013231 putative N-terminal domain interface [polypeptide binding]; other site 931281013232 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 931281013233 heterotetramer interface [polypeptide binding]; other site 931281013234 active site pocket [active] 931281013235 cleavage site 931281013236 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK13103 931281013237 DEAD/DEAH box helicase; Region: DEAD; pfam00270 931281013238 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 931281013239 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 931281013240 nucleotide binding region [chemical binding]; other site 931281013241 ATP-binding site [chemical binding]; other site 931281013242 SEC-C motif; Region: SEC-C; pfam02810 931281013243 Protein of unknown function (DUF721); Region: DUF721; pfam05258 931281013244 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 931281013245 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 931281013246 cell division protein FtsZ; Validated; Region: PRK09330 931281013247 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 931281013248 nucleotide binding site [chemical binding]; other site 931281013249 SulA interaction site; other site 931281013250 cell division protein FtsA; Region: ftsA; TIGR01174 931281013251 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 931281013252 nucleotide binding site [chemical binding]; other site 931281013253 Cell division protein FtsA; Region: FtsA; pfam14450 931281013254 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 931281013255 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 931281013256 Cell division protein FtsQ; Region: FtsQ; pfam03799 931281013257 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 931281013258 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 931281013259 ATP-grasp domain; Region: ATP-grasp_4; cl17255 931281013260 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 931281013261 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 931281013262 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 931281013263 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 931281013264 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 931281013265 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 931281013266 active site 931281013267 homodimer interface [polypeptide binding]; other site 931281013268 cell division protein FtsW; Region: ftsW; TIGR02614 931281013269 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 931281013270 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 931281013271 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 931281013272 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 931281013273 Mg++ binding site [ion binding]; other site 931281013274 putative catalytic motif [active] 931281013275 putative substrate binding site [chemical binding]; other site 931281013276 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 931281013277 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 931281013278 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 931281013279 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 931281013280 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 931281013281 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 931281013282 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 931281013283 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 931281013284 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 931281013285 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 931281013286 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 931281013287 Cell division protein FtsL; Region: FtsL; pfam04999 931281013288 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 931281013289 MraW methylase family; Region: Methyltransf_5; cl17771 931281013290 MraZ protein; Region: MraZ; pfam02381 931281013291 Predicted methyltransferases [General function prediction only]; Region: COG0313 931281013292 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 931281013293 putative SAM binding site [chemical binding]; other site 931281013294 putative homodimer interface [polypeptide binding]; other site 931281013295 LppC putative lipoprotein; Region: LppC; pfam04348 931281013296 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 931281013297 putative ligand binding site [chemical binding]; other site 931281013298 hypothetical protein; Reviewed; Region: PRK12497 931281013299 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 931281013300 dimer interface [polypeptide binding]; other site 931281013301 active site 931281013302 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 931281013303 BON domain; Region: BON; pfam04972 931281013304 BON domain; Region: BON; pfam04972 931281013305 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 931281013306 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 931281013307 stringent starvation protein A; Provisional; Region: sspA; PRK09481 931281013308 C-terminal domain interface [polypeptide binding]; other site 931281013309 putative GSH binding site (G-site) [chemical binding]; other site 931281013310 dimer interface [polypeptide binding]; other site 931281013311 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 931281013312 dimer interface [polypeptide binding]; other site 931281013313 N-terminal domain interface [polypeptide binding]; other site 931281013314 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 931281013315 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 931281013316 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 931281013317 Qi binding site; other site 931281013318 intrachain domain interface; other site 931281013319 interchain domain interface [polypeptide binding]; other site 931281013320 heme bH binding site [chemical binding]; other site 931281013321 heme bL binding site [chemical binding]; other site 931281013322 Qo binding site; other site 931281013323 interchain domain interface [polypeptide binding]; other site 931281013324 intrachain domain interface; other site 931281013325 Qi binding site; other site 931281013326 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 931281013327 Qo binding site; other site 931281013328 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 931281013329 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 931281013330 [2Fe-2S] cluster binding site [ion binding]; other site 931281013331 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 931281013332 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 931281013333 23S rRNA interface [nucleotide binding]; other site 931281013334 L3 interface [polypeptide binding]; other site 931281013335 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 931281013336 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 931281013337 active site 931281013338 catalytic tetrad [active] 931281013339 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 931281013340 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 931281013341 conserved cys residue [active] 931281013342 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281013343 Predicted ATPase [General function prediction only]; Region: COG1485 931281013344 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 931281013345 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 931281013346 active site 931281013347 HIGH motif; other site 931281013348 dimer interface [polypeptide binding]; other site 931281013349 KMSKS motif; other site 931281013350 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 931281013351 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 931281013352 methionine gamma-lyase; Provisional; Region: PRK07503 931281013353 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 931281013354 homodimer interface [polypeptide binding]; other site 931281013355 substrate-cofactor binding pocket; other site 931281013356 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281013357 catalytic residue [active] 931281013358 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 931281013359 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 931281013360 putative DNA binding site [nucleotide binding]; other site 931281013361 putative Zn2+ binding site [ion binding]; other site 931281013362 AsnC family; Region: AsnC_trans_reg; pfam01037 931281013363 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 931281013364 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 931281013365 CysD dimerization site [polypeptide binding]; other site 931281013366 G1 box; other site 931281013367 putative GEF interaction site [polypeptide binding]; other site 931281013368 GTP/Mg2+ binding site [chemical binding]; other site 931281013369 Switch I region; other site 931281013370 G2 box; other site 931281013371 G3 box; other site 931281013372 Switch II region; other site 931281013373 G4 box; other site 931281013374 G5 box; other site 931281013375 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 931281013376 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 931281013377 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 931281013378 ligand-binding site [chemical binding]; other site 931281013379 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 931281013380 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 931281013381 Active Sites [active] 931281013382 Uncharacterized conserved protein [Function unknown]; Region: COG0327 931281013383 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 931281013384 serine endoprotease; Provisional; Region: PRK10898 931281013385 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 931281013386 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 931281013387 protein binding site [polypeptide binding]; other site 931281013388 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 931281013389 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 931281013390 Walker A/P-loop; other site 931281013391 ATP binding site [chemical binding]; other site 931281013392 Q-loop/lid; other site 931281013393 ABC transporter signature motif; other site 931281013394 Walker B; other site 931281013395 D-loop; other site 931281013396 H-loop/switch region; other site 931281013397 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 931281013398 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 931281013399 dimer interface [polypeptide binding]; other site 931281013400 conserved gate region; other site 931281013401 putative PBP binding loops; other site 931281013402 ABC-ATPase subunit interface; other site 931281013403 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 931281013404 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 931281013405 conserved gate region; other site 931281013406 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 931281013407 dimer interface [polypeptide binding]; other site 931281013408 ABC-ATPase subunit interface; other site 931281013409 putative PBP binding loops; other site 931281013410 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281013411 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 931281013412 substrate binding pocket [chemical binding]; other site 931281013413 membrane-bound complex binding site; other site 931281013414 hinge residues; other site 931281013415 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 931281013416 putative hydrolase; Provisional; Region: PRK11460 931281013417 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 931281013418 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 931281013419 ATP binding site [chemical binding]; other site 931281013420 Mg++ binding site [ion binding]; other site 931281013421 motif III; other site 931281013422 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 931281013423 nucleotide binding region [chemical binding]; other site 931281013424 ATP-binding site [chemical binding]; other site 931281013425 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 931281013426 MoaD interaction [polypeptide binding]; other site 931281013427 active site residues [active] 931281013428 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 931281013429 MoaE interaction surface [polypeptide binding]; other site 931281013430 MoeB interaction surface [polypeptide binding]; other site 931281013431 thiocarboxylated glycine; other site 931281013432 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 931281013433 trimer interface [polypeptide binding]; other site 931281013434 dimer interface [polypeptide binding]; other site 931281013435 putative active site [active] 931281013436 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 931281013437 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 931281013438 putative active site [active] 931281013439 PhoH-like protein; Region: PhoH; pfam02562 931281013440 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 931281013441 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 931281013442 NodB motif; other site 931281013443 active site 931281013444 catalytic site [active] 931281013445 metal binding site [ion binding]; metal-binding site 931281013446 hypothetical protein; Validated; Region: PRK02101 931281013447 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 931281013448 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 931281013449 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 931281013450 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 931281013451 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 931281013452 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 931281013453 PilZ domain; Region: PilZ; pfam07238 931281013454 HlyD family secretion protein; Region: HlyD_3; pfam13437 931281013455 Sel1-like repeats; Region: SEL1; smart00671 931281013456 Right handed beta helix region; Region: Beta_helix; pfam13229 931281013457 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 931281013458 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cd00244 931281013459 active site 931281013460 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 931281013461 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 931281013462 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 931281013463 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 931281013464 Substrate binding site; other site 931281013465 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 931281013466 short chain dehydrogenase; Provisional; Region: PRK05693 931281013467 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 931281013468 NADP binding site [chemical binding]; other site 931281013469 active site 931281013470 steroid binding site; other site 931281013471 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 931281013472 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 931281013473 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 931281013474 HlyD family secretion protein; Region: HlyD_3; pfam13437 931281013475 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 931281013476 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 931281013477 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281013478 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281013479 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 931281013480 putative substrate binding pocket [chemical binding]; other site 931281013481 putative dimerization interface [polypeptide binding]; other site 931281013482 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 931281013483 Ligand Binding Site [chemical binding]; other site 931281013484 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 931281013485 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 931281013486 HlyD family secretion protein; Region: HlyD_3; pfam13437 931281013487 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 931281013488 Fusaric acid resistance protein family; Region: FUSC; pfam04632 931281013489 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 931281013490 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 931281013491 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281013492 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281013493 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 931281013494 putative effector binding pocket; other site 931281013495 dimerization interface [polypeptide binding]; other site 931281013496 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 931281013497 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 931281013498 dimerization interface [polypeptide binding]; other site 931281013499 ligand binding site [chemical binding]; other site 931281013500 NADP binding site [chemical binding]; other site 931281013501 catalytic site [active] 931281013502 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 931281013503 EamA-like transporter family; Region: EamA; pfam00892 931281013504 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281013505 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 931281013506 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281013507 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 931281013508 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 931281013509 N-terminal plug; other site 931281013510 ligand-binding site [chemical binding]; other site 931281013511 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 931281013512 FecR protein; Region: FecR; pfam04773 931281013513 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 931281013514 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 931281013515 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 931281013516 DNA binding residues [nucleotide binding] 931281013517 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 931281013518 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 931281013519 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 931281013520 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 931281013521 Protein of unknown function (DUF3649); Region: DUF3649; pfam12365 931281013522 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cl00250 931281013523 30S subunit binding site; other site 931281013524 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 931281013525 Predicted membrane protein [Function unknown]; Region: COG3223 931281013526 YebG protein; Region: YebG; pfam07130 931281013527 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 931281013528 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 931281013529 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 931281013530 NAD binding site [chemical binding]; other site 931281013531 Phe binding site; other site 931281013532 Uncharacterized conserved protein [Function unknown]; Region: COG2912 931281013533 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 931281013534 maleylacetoacetate isomerase; Region: maiA; TIGR01262 931281013535 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 931281013536 C-terminal domain interface [polypeptide binding]; other site 931281013537 GSH binding site (G-site) [chemical binding]; other site 931281013538 putative dimer interface [polypeptide binding]; other site 931281013539 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 931281013540 dimer interface [polypeptide binding]; other site 931281013541 N-terminal domain interface [polypeptide binding]; other site 931281013542 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 931281013543 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 931281013544 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 931281013545 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 931281013546 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 931281013547 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 931281013548 LrgB-like family; Region: LrgB; pfam04172 931281013549 LrgA family; Region: LrgA; pfam03788 931281013550 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281013551 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281013552 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 931281013553 putative dimerization interface [polypeptide binding]; other site 931281013554 flavodoxin; Provisional; Region: PRK05723 931281013555 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 931281013556 PAS domain; Region: PAS_9; pfam13426 931281013557 putative active site [active] 931281013558 heme pocket [chemical binding]; other site 931281013559 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 931281013560 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 931281013561 DNA binding residues [nucleotide binding] 931281013562 B12 binding domain; Region: B12-binding_2; pfam02607 931281013563 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 931281013564 dihydromonapterin reductase; Provisional; Region: PRK06483 931281013565 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 931281013566 NAD(P) binding site [chemical binding]; other site 931281013567 active site 931281013568 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 931281013569 HopJ type III effector protein; Region: HopJ; pfam08888 931281013570 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 931281013571 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 931281013572 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 931281013573 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 931281013574 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 931281013575 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 931281013576 acetyl-CoA acetyltransferase; Provisional; Region: PRK05656 931281013577 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 931281013578 dimer interface [polypeptide binding]; other site 931281013579 active site 931281013580 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 931281013581 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 931281013582 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 931281013583 P-loop, Walker A motif; other site 931281013584 Base recognition motif; other site 931281013585 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 931281013586 Protein of unknown function (DUF466); Region: DUF466; pfam04328 931281013587 carbon starvation protein A; Provisional; Region: PRK15015 931281013588 Carbon starvation protein CstA; Region: CstA; pfam02554 931281013589 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 931281013590 xanthine permease; Region: pbuX; TIGR03173 931281013591 DNA repair protein RadA; Provisional; Region: PRK11823 931281013592 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 931281013593 Walker A motif; other site 931281013594 ATP binding site [chemical binding]; other site 931281013595 Walker B motif; other site 931281013596 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 931281013597 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 931281013598 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 931281013599 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 931281013600 ferredoxin-NADP reductase; Provisional; Region: PRK10926 931281013601 FAD binding pocket [chemical binding]; other site 931281013602 FAD binding motif [chemical binding]; other site 931281013603 phosphate binding motif [ion binding]; other site 931281013604 beta-alpha-beta structure motif; other site 931281013605 NAD binding pocket [chemical binding]; other site 931281013606 Autoinducer binding domain; Region: Autoind_bind; pfam03472 931281013607 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 931281013608 DNA binding residues [nucleotide binding] 931281013609 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 931281013610 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 931281013611 S-adenosylmethionine binding site [chemical binding]; other site 931281013612 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 931281013613 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 931281013614 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 931281013615 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 931281013616 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 931281013617 H+ Antiporter protein; Region: 2A0121; TIGR00900 931281013618 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 931281013619 putative substrate translocation pore; other site 931281013620 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 931281013621 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 931281013622 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 931281013623 S-adenosylmethionine binding site [chemical binding]; other site 931281013624 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 931281013625 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 931281013626 heterodimer interface [polypeptide binding]; other site 931281013627 active site 931281013628 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 931281013629 heterodimer interface [polypeptide binding]; other site 931281013630 multimer interface [polypeptide binding]; other site 931281013631 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 931281013632 active site 931281013633 Predicted metalloprotease [General function prediction only]; Region: COG2321 931281013634 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 931281013635 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 931281013636 dimerization interface [polypeptide binding]; other site 931281013637 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 931281013638 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 931281013639 dimer interface [polypeptide binding]; other site 931281013640 putative CheW interface [polypeptide binding]; other site 931281013641 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 931281013642 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 931281013643 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281013644 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281013645 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 931281013646 dimerization interface [polypeptide binding]; other site 931281013647 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 931281013648 Uncharacterized conserved protein [Function unknown]; Region: COG1359 931281013649 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281013650 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281013651 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 931281013652 putative dimerization interface [polypeptide binding]; other site 931281013653 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 931281013654 putative metal binding site [ion binding]; other site 931281013655 putative homodimer interface [polypeptide binding]; other site 931281013656 putative homotetramer interface [polypeptide binding]; other site 931281013657 putative homodimer-homodimer interface [polypeptide binding]; other site 931281013658 putative allosteric switch controlling residues; other site 931281013659 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 931281013660 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 931281013661 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 931281013662 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 931281013663 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 931281013664 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 931281013665 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 931281013666 tetrameric interface [polypeptide binding]; other site 931281013667 NAD binding site [chemical binding]; other site 931281013668 catalytic residues [active] 931281013669 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281013670 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281013671 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 931281013672 dimerization interface [polypeptide binding]; other site 931281013673 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 931281013674 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 931281013675 ligand binding site [chemical binding]; other site 931281013676 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 931281013677 HAMP domain; Region: HAMP; pfam00672 931281013678 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281013679 metal binding site [ion binding]; metal-binding site 931281013680 active site 931281013681 I-site; other site 931281013682 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 931281013683 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 931281013684 AAA domain; Region: AAA_30; pfam13604 931281013685 Family description; Region: UvrD_C_2; pfam13538 931281013686 potential frameshift: common BLAST hit: gi|148549739|ref|YP_001269841.1| exodeoxyribonuclease V subunit beta 931281013687 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 931281013688 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 931281013689 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 931281013690 Family description; Region: UvrD_C_2; pfam13538 931281013691 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 931281013692 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 931281013693 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 931281013694 TMAO/DMSO reductase; Reviewed; Region: PRK05363 931281013695 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 931281013696 Moco binding site; other site 931281013697 metal coordination site [ion binding]; other site 931281013698 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 931281013699 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 931281013700 ketol-acid reductoisomerase; Provisional; Region: PRK05479 931281013701 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 931281013702 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 931281013703 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 931281013704 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 931281013705 putative valine binding site [chemical binding]; other site 931281013706 dimer interface [polypeptide binding]; other site 931281013707 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 931281013708 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 931281013709 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 931281013710 PYR/PP interface [polypeptide binding]; other site 931281013711 dimer interface [polypeptide binding]; other site 931281013712 TPP binding site [chemical binding]; other site 931281013713 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 931281013714 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 931281013715 TPP-binding site [chemical binding]; other site 931281013716 dimer interface [polypeptide binding]; other site 931281013717 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 931281013718 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 931281013719 TPR motif; other site 931281013720 binding surface 931281013721 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 931281013722 Transglycosylase; Region: Transgly; pfam00912 931281013723 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 931281013724 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 931281013725 AAA domain; Region: AAA_33; pfam13671 931281013726 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 931281013727 ATP-binding site [chemical binding]; other site 931281013728 Gluconate-6-phosphate binding site [chemical binding]; other site 931281013729 TfoX C-terminal domain; Region: TfoX_C; pfam04994 931281013730 Protein of unknown function, DUF399; Region: DUF399; cl01139 931281013731 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 931281013732 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 931281013733 Walker A/P-loop; other site 931281013734 ATP binding site [chemical binding]; other site 931281013735 Q-loop/lid; other site 931281013736 ABC transporter signature motif; other site 931281013737 Walker B; other site 931281013738 D-loop; other site 931281013739 H-loop/switch region; other site 931281013740 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 931281013741 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 931281013742 ABC-ATPase subunit interface; other site 931281013743 dimer interface [polypeptide binding]; other site 931281013744 putative PBP binding regions; other site 931281013745 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 931281013746 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 931281013747 intersubunit interface [polypeptide binding]; other site 931281013748 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 931281013749 iron-sulfur cluster [ion binding]; other site 931281013750 [2Fe-2S] cluster binding site [ion binding]; other site 931281013751 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 931281013752 hypothetical protein; Provisional; Region: PRK08960 931281013753 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 931281013754 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281013755 homodimer interface [polypeptide binding]; other site 931281013756 catalytic residue [active] 931281013757 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 931281013758 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 931281013759 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 931281013760 active site 931281013761 nucleotide binding site [chemical binding]; other site 931281013762 HIGH motif; other site 931281013763 KMSKS motif; other site 931281013764 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 931281013765 Na binding site [ion binding]; other site 931281013766 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 931281013767 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 931281013768 putative active site [active] 931281013769 heme pocket [chemical binding]; other site 931281013770 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 931281013771 dimer interface [polypeptide binding]; other site 931281013772 phosphorylation site [posttranslational modification] 931281013773 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 931281013774 ATP binding site [chemical binding]; other site 931281013775 Mg2+ binding site [ion binding]; other site 931281013776 G-X-G motif; other site 931281013777 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 931281013778 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281013779 active site 931281013780 phosphorylation site [posttranslational modification] 931281013781 intermolecular recognition site; other site 931281013782 dimerization interface [polypeptide binding]; other site 931281013783 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 931281013784 Walker A motif; other site 931281013785 ATP binding site [chemical binding]; other site 931281013786 Walker B motif; other site 931281013787 arginine finger; other site 931281013788 poly(A) polymerase; Region: pcnB; TIGR01942 931281013789 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 931281013790 active site 931281013791 NTP binding site [chemical binding]; other site 931281013792 metal binding triad [ion binding]; metal-binding site 931281013793 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 931281013794 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 931281013795 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 931281013796 catalytic center binding site [active] 931281013797 ATP binding site [chemical binding]; other site 931281013798 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 931281013799 oligomerization interface [polypeptide binding]; other site 931281013800 active site 931281013801 metal binding site [ion binding]; metal-binding site 931281013802 Pantoate-beta-alanine ligase; Region: PanC; cd00560 931281013803 pantoate--beta-alanine ligase; Region: panC; TIGR00018 931281013804 active site 931281013805 ATP-binding site [chemical binding]; other site 931281013806 pantoate-binding site; other site 931281013807 HXXH motif; other site 931281013808 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 931281013809 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 931281013810 active site 931281013811 dimer interface [polypeptide binding]; other site 931281013812 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 931281013813 dimer interface [polypeptide binding]; other site 931281013814 active site 931281013815 acetyl-CoA synthetase; Provisional; Region: PRK00174 931281013816 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 931281013817 active site 931281013818 CoA binding site [chemical binding]; other site 931281013819 acyl-activating enzyme (AAE) consensus motif; other site 931281013820 AMP binding site [chemical binding]; other site 931281013821 acetate binding site [chemical binding]; other site 931281013822 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 931281013823 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 931281013824 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 931281013825 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 931281013826 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 931281013827 ligand binding site [chemical binding]; other site 931281013828 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 931281013829 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 931281013830 active site 931281013831 metal binding site [ion binding]; metal-binding site 931281013832 Uncharacterized conserved protein [Function unknown]; Region: COG1359 931281013833 BON domain; Region: BON; pfam04972 931281013834 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 931281013835 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 931281013836 RNase E interface [polypeptide binding]; other site 931281013837 trimer interface [polypeptide binding]; other site 931281013838 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 931281013839 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 931281013840 RNase E interface [polypeptide binding]; other site 931281013841 trimer interface [polypeptide binding]; other site 931281013842 active site 931281013843 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 931281013844 putative nucleic acid binding region [nucleotide binding]; other site 931281013845 G-X-X-G motif; other site 931281013846 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 931281013847 RNA binding site [nucleotide binding]; other site 931281013848 domain interface; other site 931281013849 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 931281013850 16S/18S rRNA binding site [nucleotide binding]; other site 931281013851 S13e-L30e interaction site [polypeptide binding]; other site 931281013852 25S rRNA binding site [nucleotide binding]; other site 931281013853 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 931281013854 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 931281013855 RNA binding site [nucleotide binding]; other site 931281013856 active site 931281013857 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 931281013858 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 931281013859 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 931281013860 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 931281013861 translation initiation factor IF-2; Region: IF-2; TIGR00487 931281013862 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 931281013863 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 931281013864 G1 box; other site 931281013865 putative GEF interaction site [polypeptide binding]; other site 931281013866 GTP/Mg2+ binding site [chemical binding]; other site 931281013867 Switch I region; other site 931281013868 G2 box; other site 931281013869 G3 box; other site 931281013870 Switch II region; other site 931281013871 G4 box; other site 931281013872 G5 box; other site 931281013873 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 931281013874 Translation-initiation factor 2; Region: IF-2; pfam11987 931281013875 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 931281013876 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 931281013877 NusA N-terminal domain; Region: NusA_N; pfam08529 931281013878 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 931281013879 RNA binding site [nucleotide binding]; other site 931281013880 homodimer interface [polypeptide binding]; other site 931281013881 NusA-like KH domain; Region: KH_5; pfam13184 931281013882 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 931281013883 G-X-X-G motif; other site 931281013884 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 931281013885 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 931281013886 ribosome maturation protein RimP; Reviewed; Region: PRK00092 931281013887 Sm and related proteins; Region: Sm_like; cl00259 931281013888 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 931281013889 putative oligomer interface [polypeptide binding]; other site 931281013890 putative RNA binding site [nucleotide binding]; other site 931281013891 triosephosphate isomerase; Provisional; Region: PRK14567 931281013892 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 931281013893 substrate binding site [chemical binding]; other site 931281013894 dimer interface [polypeptide binding]; other site 931281013895 catalytic triad [active] 931281013896 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 931281013897 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 931281013898 active site 931281013899 substrate binding site [chemical binding]; other site 931281013900 metal binding site [ion binding]; metal-binding site 931281013901 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 931281013902 dihydropteroate synthase; Region: DHPS; TIGR01496 931281013903 substrate binding pocket [chemical binding]; other site 931281013904 dimer interface [polypeptide binding]; other site 931281013905 inhibitor binding site; inhibition site 931281013906 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 931281013907 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 931281013908 Walker A motif; other site 931281013909 ATP binding site [chemical binding]; other site 931281013910 Walker B motif; other site 931281013911 arginine finger; other site 931281013912 Peptidase family M41; Region: Peptidase_M41; pfam01434 931281013913 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 931281013914 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 931281013915 S-adenosylmethionine binding site [chemical binding]; other site 931281013916 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 931281013917 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 931281013918 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 931281013919 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 931281013920 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 931281013921 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 931281013922 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 931281013923 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 931281013924 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 931281013925 ATP-grasp domain; Region: ATP-grasp_4; cl17255 931281013926 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 931281013927 IMP binding site; other site 931281013928 dimer interface [polypeptide binding]; other site 931281013929 interdomain contacts; other site 931281013930 partial ornithine binding site; other site 931281013931 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 931281013932 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 931281013933 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 931281013934 catalytic site [active] 931281013935 subunit interface [polypeptide binding]; other site 931281013936 dihydrodipicolinate reductase; Provisional; Region: PRK00048 931281013937 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 931281013938 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 931281013939 chaperone protein DnaJ; Provisional; Region: PRK10767 931281013940 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 931281013941 HSP70 interaction site [polypeptide binding]; other site 931281013942 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 931281013943 substrate binding site [polypeptide binding]; other site 931281013944 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 931281013945 Zn binding sites [ion binding]; other site 931281013946 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 931281013947 dimer interface [polypeptide binding]; other site 931281013948 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 931281013949 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 931281013950 nucleotide binding site [chemical binding]; other site 931281013951 NEF interaction site [polypeptide binding]; other site 931281013952 SBD interface [polypeptide binding]; other site 931281013953 GrpE; Region: GrpE; pfam01025 931281013954 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 931281013955 dimer interface [polypeptide binding]; other site 931281013956 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 931281013957 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 931281013958 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 931281013959 Walker A/P-loop; other site 931281013960 ATP binding site [chemical binding]; other site 931281013961 Q-loop/lid; other site 931281013962 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 931281013963 Q-loop/lid; other site 931281013964 ABC transporter signature motif; other site 931281013965 Walker B; other site 931281013966 D-loop; other site 931281013967 H-loop/switch region; other site 931281013968 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 931281013969 metal binding site 2 [ion binding]; metal-binding site 931281013970 putative DNA binding helix; other site 931281013971 metal binding site 1 [ion binding]; metal-binding site 931281013972 dimer interface [polypeptide binding]; other site 931281013973 structural Zn2+ binding site [ion binding]; other site 931281013974 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 931281013975 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 931281013976 putative coenzyme Q binding site [chemical binding]; other site 931281013977 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 931281013978 SmpB-tmRNA interface; other site 931281013979 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 931281013980 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281013981 DNA-binding site [nucleotide binding]; DNA binding site 931281013982 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 931281013983 glycolate transporter; Provisional; Region: PRK09695 931281013984 L-lactate permease; Region: Lactate_perm; cl00701 931281013985 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 931281013986 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 931281013987 phosphate binding site [ion binding]; other site 931281013988 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 931281013989 FAD binding domain; Region: FAD_binding_4; pfam01565 931281013990 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 931281013991 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 931281013992 Winged helix-turn helix; Region: HTH_29; pfam13551 931281013993 Helix-turn-helix domain; Region: HTH_28; pfam13518 931281013994 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 931281013995 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 931281013996 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281013997 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 931281013998 dimerization interface [polypeptide binding]; other site 931281013999 substrate binding pocket [chemical binding]; other site 931281014000 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 931281014001 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 931281014002 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 931281014003 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 931281014004 ATP binding site [chemical binding]; other site 931281014005 putative Mg++ binding site [ion binding]; other site 931281014006 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 931281014007 HsdM N-terminal domain; Region: HsdM_N; pfam12161 931281014008 Methyltransferase domain; Region: Methyltransf_26; pfam13659 931281014009 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 931281014010 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 931281014011 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 931281014012 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 931281014013 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281014014 AAA domain; Region: AAA_21; pfam13304 931281014015 Walker A/P-loop; other site 931281014016 ATP binding site [chemical binding]; other site 931281014017 AAA domain; Region: AAA_21; pfam13304 931281014018 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 931281014019 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 931281014020 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281014021 substrate binding pocket [chemical binding]; other site 931281014022 membrane-bound complex binding site; other site 931281014023 hinge residues; other site 931281014024 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 931281014025 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 931281014026 dimer interface [polypeptide binding]; other site 931281014027 conserved gate region; other site 931281014028 putative PBP binding loops; other site 931281014029 ABC-ATPase subunit interface; other site 931281014030 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 931281014031 dimer interface [polypeptide binding]; other site 931281014032 conserved gate region; other site 931281014033 putative PBP binding loops; other site 931281014034 ABC-ATPase subunit interface; other site 931281014035 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 931281014036 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 931281014037 Walker A/P-loop; other site 931281014038 ATP binding site [chemical binding]; other site 931281014039 Q-loop/lid; other site 931281014040 ABC transporter signature motif; other site 931281014041 Walker B; other site 931281014042 D-loop; other site 931281014043 H-loop/switch region; other site 931281014044 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 931281014045 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 931281014046 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 931281014047 active site 931281014048 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 931281014049 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 931281014050 putative active site [active] 931281014051 putative FMN binding site [chemical binding]; other site 931281014052 putative substrate binding site [chemical binding]; other site 931281014053 putative catalytic residue [active] 931281014054 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 931281014055 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 931281014056 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 931281014057 Secretin and TonB N terminus short domain; Region: STN; smart00965 931281014058 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 931281014059 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 931281014060 N-terminal plug; other site 931281014061 ligand-binding site [chemical binding]; other site 931281014062 Peptidase family M23; Region: Peptidase_M23; pfam01551 931281014063 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 931281014064 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2425 931281014065 flagellar assembly protein H; Provisional; Region: fliH; PRK13386 931281014066 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 931281014067 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 931281014068 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 931281014069 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 931281014070 ligand binding site [chemical binding]; other site 931281014071 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 931281014072 Protein of unknown function (DUF615); Region: DUF615; cl01147 931281014073 conjugal transfer/type IV secretion protein DotA/TraY; Region: DotA_TraY; TIGR04346 931281014074 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 931281014075 Dot/Icm secretion system ATPase DotB; Region: dot_icm_DotB; TIGR02524 931281014076 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 931281014077 Walker A motif; other site 931281014078 ATP binding site [chemical binding]; other site 931281014079 Walker B motif; other site 931281014080 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 931281014081 N-acetyl-D-glucosamine binding site [chemical binding]; other site 931281014082 catalytic residue [active] 931281014083 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 931281014084 Hint (Hedgehog/Intein) domain N-terminal region; Region: HintN; smart00306 931281014085 thioester formation/cholesterol transfer; other site 931281014086 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 931281014087 AAA-like domain; Region: AAA_10; pfam12846 931281014088 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 931281014089 active site 931281014090 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 931281014091 Protein of unknown function (DUF3625); Region: DUF3625; pfam12293 931281014092 Macrophage killing protein with similarity to conjugation protein; Region: IcmL; pfam11393 931281014093 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 931281014094 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 931281014095 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 931281014096 active site 931281014097 tetramer interface [polypeptide binding]; other site 931281014098 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 931281014099 D-galactonate transporter; Region: 2A0114; TIGR00893 931281014100 putative substrate translocation pore; other site 931281014101 Transcriptional regulators [Transcription]; Region: FadR; COG2186 931281014102 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281014103 DNA-binding site [nucleotide binding]; DNA binding site 931281014104 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 931281014105 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 931281014106 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 931281014107 putative NAD(P) binding site [chemical binding]; other site 931281014108 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 931281014109 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 931281014110 active site 931281014111 motif I; other site 931281014112 motif II; other site 931281014113 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 931281014114 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 931281014115 active site 931281014116 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 931281014117 catalytic triad [active] 931281014118 dimer interface [polypeptide binding]; other site 931281014119 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 931281014120 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 931281014121 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 931281014122 catalytic core [active] 931281014123 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 931281014124 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 931281014125 putative active site [active] 931281014126 Zn binding site [ion binding]; other site 931281014127 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 931281014128 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 931281014129 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 931281014130 ATP binding site [chemical binding]; other site 931281014131 Mg++ binding site [ion binding]; other site 931281014132 motif III; other site 931281014133 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 931281014134 nucleotide binding region [chemical binding]; other site 931281014135 ATP-binding site [chemical binding]; other site 931281014136 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 931281014137 EamA-like transporter family; Region: EamA; pfam00892 931281014138 EamA-like transporter family; Region: EamA; pfam00892 931281014139 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 931281014140 active site 931281014141 catalytic site [active] 931281014142 substrate binding site [chemical binding]; other site 931281014143 Uncharacterized conserved protein [Function unknown]; Region: COG1432 931281014144 LabA_like proteins; Region: LabA; cd10911 931281014145 putative metal binding site [ion binding]; other site 931281014146 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 931281014147 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 931281014148 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 931281014149 nucleotide binding region [chemical binding]; other site 931281014150 ATP-binding site [chemical binding]; other site 931281014151 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 931281014152 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 931281014153 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 931281014154 active site 931281014155 catalytic residues [active] 931281014156 DNA binding site [nucleotide binding] 931281014157 Int/Topo IB signature motif; other site 931281014158 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 931281014159 active site 931281014160 catalytic residues [active] 931281014161 DNA binding site [nucleotide binding] 931281014162 Int/Topo IB signature motif; other site 931281014163 Helix-turn-helix domain; Region: HTH_36; pfam13730 931281014164 Helix-turn-helix domain; Region: HTH_36; pfam13730 931281014165 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 931281014166 Transposase; Region: HTH_Tnp_1; pfam01527 931281014167 putative transposase OrfB; Reviewed; Region: PHA02517 931281014168 HTH-like domain; Region: HTH_21; pfam13276 931281014169 Integrase core domain; Region: rve; pfam00665 931281014170 Integrase core domain; Region: rve_3; pfam13683 931281014171 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 931281014172 Catalytic domain of Protein Kinases; Region: PKc; cd00180 931281014173 active site 931281014174 ATP binding site [chemical binding]; other site 931281014175 substrate binding site [chemical binding]; other site 931281014176 activation loop (A-loop); other site 931281014177 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 931281014178 Family description; Region: UvrD_C_2; pfam13538 931281014179 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 931281014180 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 931281014181 active site 931281014182 metal binding site [ion binding]; metal-binding site 931281014183 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 931281014184 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 931281014185 ATP binding site [chemical binding]; other site 931281014186 putative Mg++ binding site [ion binding]; other site 931281014187 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 931281014188 nucleotide binding region [chemical binding]; other site 931281014189 ATP-binding site [chemical binding]; other site 931281014190 Helicase associated domain (HA2); Region: HA2; pfam04408 931281014191 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 931281014192 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 931281014193 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 931281014194 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 931281014195 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 931281014196 ATP binding site [chemical binding]; other site 931281014197 putative Mg++ binding site [ion binding]; other site 931281014198 Cation efflux family; Region: Cation_efflux; cl00316 931281014199 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 931281014200 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 931281014201 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 931281014202 putative DNA binding site [nucleotide binding]; other site 931281014203 putative Zn2+ binding site [ion binding]; other site 931281014204 AsnC family; Region: AsnC_trans_reg; pfam01037 931281014205 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 931281014206 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 931281014207 pseudouridine synthase; Region: TIGR00093 931281014208 active site 931281014209 AMP nucleosidase; Provisional; Region: PRK08292 931281014210 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 931281014211 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 931281014212 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 931281014213 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 931281014214 active site 931281014215 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 931281014216 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 931281014217 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 931281014218 dimer interface [polypeptide binding]; other site 931281014219 phosphorylation site [posttranslational modification] 931281014220 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 931281014221 ATP binding site [chemical binding]; other site 931281014222 Mg2+ binding site [ion binding]; other site 931281014223 G-X-G motif; other site 931281014224 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 931281014225 dimer interface [polypeptide binding]; other site 931281014226 substrate binding site [chemical binding]; other site 931281014227 ATP binding site [chemical binding]; other site 931281014228 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 931281014229 thiamine phosphate binding site [chemical binding]; other site 931281014230 active site 931281014231 pyrophosphate binding site [ion binding]; other site 931281014232 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 931281014233 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 931281014234 inhibitor-cofactor binding pocket; inhibition site 931281014235 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281014236 catalytic residue [active] 931281014237 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 931281014238 Sel1-like repeats; Region: SEL1; smart00671 931281014239 Sel1-like repeats; Region: SEL1; smart00671 931281014240 Domain of unknown function (DUF1820); Region: DUF1820; pfam08850 931281014241 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 931281014242 PhoH-like protein; Region: PhoH; pfam02562 931281014243 metal-binding heat shock protein; Provisional; Region: PRK00016 931281014244 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 931281014245 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 931281014246 Transporter associated domain; Region: CorC_HlyC; smart01091 931281014247 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 931281014248 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 931281014249 putative active site [active] 931281014250 catalytic triad [active] 931281014251 putative dimer interface [polypeptide binding]; other site 931281014252 Uncharacterized conserved protein [Function unknown]; Region: COG1434 931281014253 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 931281014254 putative active site [active] 931281014255 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 931281014256 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 931281014257 HIGH motif; other site 931281014258 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 931281014259 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 931281014260 active site 931281014261 KMSKS motif; other site 931281014262 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 931281014263 tRNA binding surface [nucleotide binding]; other site 931281014264 Lipopolysaccharide-assembly; Region: LptE; cl01125 931281014265 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 931281014266 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 931281014267 Domain of unknown function; Region: DUF331; cl01149 931281014268 Transglycosylase SLT domain; Region: SLT_2; pfam13406 931281014269 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 931281014270 N-acetyl-D-glucosamine binding site [chemical binding]; other site 931281014271 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 931281014272 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 931281014273 dimer interface [polypeptide binding]; other site 931281014274 catalytic triad [active] 931281014275 lipoyl synthase; Provisional; Region: PRK05481 931281014276 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 931281014277 FeS/SAM binding site; other site 931281014278 lipoate-protein ligase B; Provisional; Region: PRK14342 931281014279 hypothetical protein; Provisional; Region: PRK00341 931281014280 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 931281014281 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 931281014282 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 931281014283 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 931281014284 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 931281014285 Sporulation related domain; Region: SPOR; pfam05036 931281014286 Transglycosylase SLT domain; Region: SLT_2; pfam13406 931281014287 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 931281014288 N-acetyl-D-glucosamine binding site [chemical binding]; other site 931281014289 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 931281014290 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 931281014291 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 931281014292 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 931281014293 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 931281014294 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 931281014295 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 931281014296 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 931281014297 active site 931281014298 (T/H)XGH motif; other site 931281014299 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 931281014300 putative catalytic cysteine [active] 931281014301 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 931281014302 active site 931281014303 DNA binding site [nucleotide binding] 931281014304 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 931281014305 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 931281014306 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 931281014307 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 931281014308 active site 931281014309 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 931281014310 LrgB-like family; Region: LrgB; pfam04172 931281014311 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 931281014312 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 931281014313 putative active site [active] 931281014314 putative catalytic site [active] 931281014315 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 931281014316 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 931281014317 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 931281014318 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 931281014319 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 931281014320 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 931281014321 FMN binding site [chemical binding]; other site 931281014322 active site 931281014323 catalytic residues [active] 931281014324 substrate binding site [chemical binding]; other site 931281014325 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 931281014326 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 931281014327 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 931281014328 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 931281014329 purine monophosphate binding site [chemical binding]; other site 931281014330 dimer interface [polypeptide binding]; other site 931281014331 putative catalytic residues [active] 931281014332 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 931281014333 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 931281014334 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 931281014335 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 931281014336 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 931281014337 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 931281014338 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 931281014339 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 931281014340 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 931281014341 dimer interface [polypeptide binding]; other site 931281014342 phosphorylation site [posttranslational modification] 931281014343 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 931281014344 ATP binding site [chemical binding]; other site 931281014345 Mg2+ binding site [ion binding]; other site 931281014346 G-X-G motif; other site 931281014347 Response regulator receiver domain; Region: Response_reg; pfam00072 931281014348 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281014349 active site 931281014350 phosphorylation site [posttranslational modification] 931281014351 intermolecular recognition site; other site 931281014352 dimerization interface [polypeptide binding]; other site 931281014353 Response regulator receiver domain; Region: Response_reg; pfam00072 931281014354 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281014355 active site 931281014356 phosphorylation site [posttranslational modification] 931281014357 intermolecular recognition site; other site 931281014358 dimerization interface [polypeptide binding]; other site 931281014359 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 931281014360 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 931281014361 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 931281014362 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 931281014363 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 931281014364 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 931281014365 active site 931281014366 SAM binding site [chemical binding]; other site 931281014367 homodimer interface [polypeptide binding]; other site 931281014368 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 931281014369 homodimer interface [polypeptide binding]; other site 931281014370 active site 931281014371 SAM binding site [chemical binding]; other site 931281014372 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 931281014373 Precorrin-8X methylmutase; Region: CbiC; pfam02570 931281014374 precorrin-3B synthase; Region: CobG; TIGR02435 931281014375 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 931281014376 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 931281014377 active site 931281014378 putative homodimer interface [polypeptide binding]; other site 931281014379 SAM binding site [chemical binding]; other site 931281014380 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 931281014381 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 931281014382 S-adenosylmethionine binding site [chemical binding]; other site 931281014383 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 931281014384 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 931281014385 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 931281014386 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 931281014387 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 931281014388 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 931281014389 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 931281014390 Protein of unknown function (DUF461); Region: DUF461; pfam04314 931281014391 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 931281014392 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 931281014393 N-terminal plug; other site 931281014394 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 931281014395 ligand-binding site [chemical binding]; other site 931281014396 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 931281014397 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 931281014398 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 931281014399 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 931281014400 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 931281014401 Spore germination protein; Region: Spore_permease; cl17796 931281014402 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 931281014403 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 931281014404 putative ligand binding site [chemical binding]; other site 931281014405 HEAT repeats; Region: HEAT_2; pfam13646 931281014406 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 931281014407 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 931281014408 TM-ABC transporter signature motif; other site 931281014409 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 931281014410 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 931281014411 TM-ABC transporter signature motif; other site 931281014412 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 931281014413 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 931281014414 Walker A/P-loop; other site 931281014415 ATP binding site [chemical binding]; other site 931281014416 Q-loop/lid; other site 931281014417 ABC transporter signature motif; other site 931281014418 Walker B; other site 931281014419 D-loop; other site 931281014420 H-loop/switch region; other site 931281014421 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 931281014422 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 931281014423 Walker A/P-loop; other site 931281014424 ATP binding site [chemical binding]; other site 931281014425 Q-loop/lid; other site 931281014426 ABC transporter signature motif; other site 931281014427 Walker B; other site 931281014428 D-loop; other site 931281014429 H-loop/switch region; other site 931281014430 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 931281014431 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 931281014432 Coenzyme A binding pocket [chemical binding]; other site 931281014433 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 931281014434 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 931281014435 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 931281014436 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 931281014437 HSP70 interaction site [polypeptide binding]; other site 931281014438 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 931281014439 substrate binding site [polypeptide binding]; other site 931281014440 dimer interface [polypeptide binding]; other site 931281014441 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 931281014442 putative chaperone; Provisional; Region: PRK11678 931281014443 nucleotide binding site [chemical binding]; other site 931281014444 putative NEF/HSP70 interaction site [polypeptide binding]; other site 931281014445 SBD interface [polypeptide binding]; other site 931281014446 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 931281014447 hypothetical protein; Provisional; Region: PRK11505 931281014448 psiF repeat; Region: PsiF_repeat; pfam07769 931281014449 psiF repeat; Region: PsiF_repeat; pfam07769 931281014450 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 931281014451 Helix-turn-helix domain; Region: HTH_18; pfam12833 931281014452 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281014453 EamA-like transporter family; Region: EamA; pfam00892 931281014454 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 931281014455 EamA-like transporter family; Region: EamA; pfam00892 931281014456 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 931281014457 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 931281014458 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 931281014459 Ferritin-like domain; Region: Ferritin; pfam00210 931281014460 dinuclear metal binding motif [ion binding]; other site 931281014461 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 931281014462 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 931281014463 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 931281014464 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 931281014465 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 931281014466 dimerization interface [polypeptide binding]; other site 931281014467 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 931281014468 putative active cleft [active] 931281014469 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 931281014470 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 931281014471 putative NAD(P) binding site [chemical binding]; other site 931281014472 homotetramer interface [polypeptide binding]; other site 931281014473 homodimer interface [polypeptide binding]; other site 931281014474 active site 931281014475 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 931281014476 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 931281014477 Walker A/P-loop; other site 931281014478 ATP binding site [chemical binding]; other site 931281014479 Q-loop/lid; other site 931281014480 ABC transporter signature motif; other site 931281014481 Walker B; other site 931281014482 D-loop; other site 931281014483 H-loop/switch region; other site 931281014484 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 931281014485 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 931281014486 Walker A/P-loop; other site 931281014487 ATP binding site [chemical binding]; other site 931281014488 Q-loop/lid; other site 931281014489 ABC transporter signature motif; other site 931281014490 Walker B; other site 931281014491 D-loop; other site 931281014492 H-loop/switch region; other site 931281014493 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 931281014494 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 931281014495 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 931281014496 TM-ABC transporter signature motif; other site 931281014497 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 931281014498 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 931281014499 TM-ABC transporter signature motif; other site 931281014500 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 931281014501 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 931281014502 dimerization interface [polypeptide binding]; other site 931281014503 ligand binding site [chemical binding]; other site 931281014504 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 931281014505 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 931281014506 active site 931281014507 NAD+ synthetase; Region: nadE; TIGR00552 931281014508 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 931281014509 homodimer interface [polypeptide binding]; other site 931281014510 NAD binding pocket [chemical binding]; other site 931281014511 ATP binding pocket [chemical binding]; other site 931281014512 Mg binding site [ion binding]; other site 931281014513 active-site loop [active] 931281014514 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 931281014515 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 931281014516 hypothetical protein; Provisional; Region: PRK01254 931281014517 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 931281014518 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 931281014519 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 931281014520 replicative DNA helicase; Provisional; Region: PRK05748 931281014521 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 931281014522 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 931281014523 Walker A motif; other site 931281014524 ATP binding site [chemical binding]; other site 931281014525 Walker B motif; other site 931281014526 DNA binding loops [nucleotide binding] 931281014527 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 931281014528 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 931281014529 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 931281014530 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 931281014531 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 931281014532 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 931281014533 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 931281014534 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 931281014535 ribonuclease R; Region: RNase_R; TIGR02063 931281014536 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 931281014537 RNB domain; Region: RNB; pfam00773 931281014538 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 931281014539 RNA binding site [nucleotide binding]; other site 931281014540 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 931281014541 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 931281014542 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 931281014543 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 931281014544 dimer interface [polypeptide binding]; other site 931281014545 conserved gate region; other site 931281014546 putative PBP binding loops; other site 931281014547 ABC-ATPase subunit interface; other site 931281014548 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 931281014549 dimer interface [polypeptide binding]; other site 931281014550 conserved gate region; other site 931281014551 putative PBP binding loops; other site 931281014552 ABC-ATPase subunit interface; other site 931281014553 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 931281014554 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 931281014555 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 931281014556 dimer interface [polypeptide binding]; other site 931281014557 putative CheW interface [polypeptide binding]; other site 931281014558 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 931281014559 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 931281014560 GDP-binding site [chemical binding]; other site 931281014561 ACT binding site; other site 931281014562 IMP binding site; other site 931281014563 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 931281014564 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 931281014565 dimer interface [polypeptide binding]; other site 931281014566 motif 1; other site 931281014567 active site 931281014568 motif 2; other site 931281014569 motif 3; other site 931281014570 FtsH protease regulator HflC; Provisional; Region: PRK11029 931281014571 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 931281014572 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 931281014573 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 931281014574 HflK protein; Region: hflK; TIGR01933 931281014575 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 931281014576 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 931281014577 HflX GTPase family; Region: HflX; cd01878 931281014578 G1 box; other site 931281014579 GTP/Mg2+ binding site [chemical binding]; other site 931281014580 Switch I region; other site 931281014581 G2 box; other site 931281014582 G3 box; other site 931281014583 Switch II region; other site 931281014584 G4 box; other site 931281014585 G5 box; other site 931281014586 bacterial Hfq-like; Region: Hfq; cd01716 931281014587 hexamer interface [polypeptide binding]; other site 931281014588 Sm1 motif; other site 931281014589 RNA binding site [nucleotide binding]; other site 931281014590 Sm2 motif; other site 931281014591 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 931281014592 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 931281014593 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 931281014594 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 931281014595 ATP binding site [chemical binding]; other site 931281014596 Mg2+ binding site [ion binding]; other site 931281014597 G-X-G motif; other site 931281014598 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 931281014599 ATP binding site [chemical binding]; other site 931281014600 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 931281014601 AMIN domain; Region: AMIN; pfam11741 931281014602 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 931281014603 active site 931281014604 metal binding site [ion binding]; metal-binding site 931281014605 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 931281014606 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 931281014607 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 931281014608 putative ATP binding site [chemical binding]; other site 931281014609 putative substrate binding site [chemical binding]; other site 931281014610 epoxyqueuosine reductase; Region: TIGR00276 931281014611 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 931281014612 Predicted membrane protein [Function unknown]; Region: COG2860 931281014613 UPF0126 domain; Region: UPF0126; pfam03458 931281014614 UPF0126 domain; Region: UPF0126; pfam03458 931281014615 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 931281014616 catalytic site [active] 931281014617 putative active site [active] 931281014618 putative substrate binding site [chemical binding]; other site 931281014619 dimer interface [polypeptide binding]; other site 931281014620 GTPase RsgA; Reviewed; Region: PRK12288 931281014621 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 931281014622 RNA binding site [nucleotide binding]; other site 931281014623 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 931281014624 GTPase/Zn-binding domain interface [polypeptide binding]; other site 931281014625 GTP/Mg2+ binding site [chemical binding]; other site 931281014626 G4 box; other site 931281014627 G5 box; other site 931281014628 G1 box; other site 931281014629 Switch I region; other site 931281014630 G2 box; other site 931281014631 G3 box; other site 931281014632 Switch II region; other site 931281014633 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 931281014634 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 931281014635 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 931281014636 ligand binding site [chemical binding]; other site 931281014637 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 931281014638 flagellar motor protein MotA; Validated; Region: PRK09110 931281014639 HDOD domain; Region: HDOD; pfam08668 931281014640 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 931281014641 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 931281014642 active site residue [active] 931281014643 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 931281014644 active site residue [active] 931281014645 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 931281014646 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 931281014647 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 931281014648 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 931281014649 phosphoserine phosphatase SerB; Region: serB; TIGR00338 931281014650 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 931281014651 motif II; other site 931281014652 Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]; Region: AhpA; COG3726 931281014653 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 931281014654 Protein of unknown function (DUF330); Region: DUF330; pfam03886 931281014655 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 931281014656 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 931281014657 CAP-like domain; other site 931281014658 active site 931281014659 primary dimer interface [polypeptide binding]; other site 931281014660 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 931281014661 catalytic motif [active] 931281014662 Catalytic residue [active] 931281014663 SdiA-regulated; Region: SdiA-regulated; cd09971 931281014664 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 931281014665 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 931281014666 ATP binding site [chemical binding]; other site 931281014667 Mg2+ binding site [ion binding]; other site 931281014668 G-X-G motif; other site 931281014669 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 931281014670 anchoring element; other site 931281014671 dimer interface [polypeptide binding]; other site 931281014672 ATP binding site [chemical binding]; other site 931281014673 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 931281014674 active site 931281014675 metal binding site [ion binding]; metal-binding site 931281014676 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 931281014677 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 931281014678 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 931281014679 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 931281014680 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 931281014681 active site 931281014682 metal binding site [ion binding]; metal-binding site 931281014683 hexamer interface [polypeptide binding]; other site 931281014684 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 931281014685 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 931281014686 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 931281014687 dimer interface [polypeptide binding]; other site 931281014688 ADP-ribose binding site [chemical binding]; other site 931281014689 active site 931281014690 nudix motif; other site 931281014691 metal binding site [ion binding]; metal-binding site 931281014692 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 931281014693 putative hydroxymethylpyrimidine transporter CytX; Region: thia_cytX; TIGR02358 931281014694 Na binding site [ion binding]; other site 931281014695 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 931281014696 ThiC-associated domain; Region: ThiC-associated; pfam13667 931281014697 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 931281014698 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 931281014699 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 931281014700 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 931281014701 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 931281014702 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281014703 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281014704 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 931281014705 dimerization interface [polypeptide binding]; other site 931281014706 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 931281014707 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 931281014708 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 931281014709 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 931281014710 active site 931281014711 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 931281014712 catalytic tetrad [active] 931281014713 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 931281014714 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 931281014715 putative ribose interaction site [chemical binding]; other site 931281014716 putative ADP binding site [chemical binding]; other site 931281014717 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 931281014718 active site 931281014719 nucleotide binding site [chemical binding]; other site 931281014720 HIGH motif; other site 931281014721 KMSKS motif; other site 931281014722 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 931281014723 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 931281014724 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 931281014725 Walker A/P-loop; other site 931281014726 ATP binding site [chemical binding]; other site 931281014727 Q-loop/lid; other site 931281014728 ABC transporter signature motif; other site 931281014729 Walker B; other site 931281014730 D-loop; other site 931281014731 H-loop/switch region; other site 931281014732 O-Antigen ligase; Region: Wzy_C; pfam04932 931281014733 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 931281014734 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 931281014735 active site 931281014736 substrate binding site [chemical binding]; other site 931281014737 ATP binding site [chemical binding]; other site 931281014738 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 931281014739 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 931281014740 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 931281014741 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 931281014742 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 931281014743 Mig-14; Region: Mig-14; pfam07395 931281014744 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 931281014745 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 931281014746 putative ADP-binding pocket [chemical binding]; other site 931281014747 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 931281014748 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 931281014749 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 931281014750 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 931281014751 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 931281014752 Na binding site [ion binding]; other site 931281014753 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 931281014754 Predicted transcriptional regulator [Transcription]; Region: COG3905 931281014755 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 931281014756 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 931281014757 Glutamate binding site [chemical binding]; other site 931281014758 NAD binding site [chemical binding]; other site 931281014759 catalytic residues [active] 931281014760 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 931281014761 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 931281014762 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 931281014763 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 931281014764 active site 931281014765 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 931281014766 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 931281014767 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 931281014768 putative transporter; Provisional; Region: PRK10504 931281014769 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 931281014770 putative substrate translocation pore; other site 931281014771 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 931281014772 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 931281014773 ATP binding site [chemical binding]; other site 931281014774 Mg++ binding site [ion binding]; other site 931281014775 motif III; other site 931281014776 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 931281014777 nucleotide binding region [chemical binding]; other site 931281014778 ATP-binding site [chemical binding]; other site 931281014779 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 931281014780 putative RNA binding site [nucleotide binding]; other site 931281014781 HI0933-like protein; Region: HI0933_like; pfam03486 931281014782 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 931281014783 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 931281014784 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 931281014785 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 931281014786 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 931281014787 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281014788 substrate binding pocket [chemical binding]; other site 931281014789 membrane-bound complex binding site; other site 931281014790 hinge residues; other site 931281014791 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 931281014792 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; pfam09904 931281014793 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 931281014794 Response regulator receiver domain; Region: Response_reg; pfam00072 931281014795 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281014796 active site 931281014797 phosphorylation site [posttranslational modification] 931281014798 intermolecular recognition site; other site 931281014799 dimerization interface [polypeptide binding]; other site 931281014800 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 931281014801 PAS domain; Region: PAS_9; pfam13426 931281014802 putative active site [active] 931281014803 heme pocket [chemical binding]; other site 931281014804 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 931281014805 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281014806 metal binding site [ion binding]; metal-binding site 931281014807 active site 931281014808 I-site; other site 931281014809 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 931281014810 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 931281014811 intersubunit interface [polypeptide binding]; other site 931281014812 active site 931281014813 zinc binding site [ion binding]; other site 931281014814 Na+ binding site [ion binding]; other site 931281014815 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 931281014816 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 931281014817 Phosphoglycerate kinase; Region: PGK; pfam00162 931281014818 substrate binding site [chemical binding]; other site 931281014819 hinge regions; other site 931281014820 ADP binding site [chemical binding]; other site 931281014821 catalytic site [active] 931281014822 erythrose-4-phosphate dehydrogenase; Region: E4PD_g-proteo; TIGR01532 931281014823 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 931281014824 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 931281014825 transketolase; Reviewed; Region: PRK12753 931281014826 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 931281014827 TPP-binding site [chemical binding]; other site 931281014828 dimer interface [polypeptide binding]; other site 931281014829 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 931281014830 PYR/PP interface [polypeptide binding]; other site 931281014831 dimer interface [polypeptide binding]; other site 931281014832 TPP binding site [chemical binding]; other site 931281014833 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 931281014834 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 931281014835 putative DNA binding site [nucleotide binding]; other site 931281014836 Methyltransferase domain; Region: Methyltransf_23; pfam13489 931281014837 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 931281014838 S-adenosylmethionine binding site [chemical binding]; other site 931281014839 S-adenosylmethionine synthetase; Validated; Region: PRK05250 931281014840 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 931281014841 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 931281014842 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 931281014843 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 931281014844 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; cl03295 931281014845 nucleotide binding pocket [chemical binding]; other site 931281014846 K-X-D-G motif; other site 931281014847 catalytic site [active] 931281014848 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 931281014849 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 931281014850 Cytochrome C' Region: Cytochrom_C_2; pfam01322 931281014851 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 931281014852 MltA specific insert domain; Region: MltA; pfam03562 931281014853 3D domain; Region: 3D; pfam06725 931281014854 MAPEG family; Region: MAPEG; cl09190 931281014855 EamA-like transporter family; Region: EamA; cl17759 931281014856 EamA-like transporter family; Region: EamA; pfam00892 931281014857 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 931281014858 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 931281014859 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 931281014860 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 931281014861 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 931281014862 homotetramer interface [polypeptide binding]; other site 931281014863 ligand binding site [chemical binding]; other site 931281014864 catalytic site [active] 931281014865 NAD binding site [chemical binding]; other site 931281014866 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 931281014867 FAD binding site [chemical binding]; other site 931281014868 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 931281014869 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281014870 substrate binding pocket [chemical binding]; other site 931281014871 membrane-bound complex binding site; other site 931281014872 hinge residues; other site 931281014873 DEAD-like helicases superfamily; Region: DEXDc; smart00487 931281014874 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 931281014875 ATP binding site [chemical binding]; other site 931281014876 Mg++ binding site [ion binding]; other site 931281014877 motif III; other site 931281014878 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 931281014879 nucleotide binding region [chemical binding]; other site 931281014880 ATP-binding site [chemical binding]; other site 931281014881 hypothetical protein; Provisional; Region: PRK03757 931281014882 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 931281014883 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 931281014884 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 931281014885 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 931281014886 inhibitor-cofactor binding pocket; inhibition site 931281014887 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281014888 catalytic residue [active] 931281014889 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 931281014890 RNA methyltransferase, RsmE family; Region: TIGR00046 931281014891 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 931281014892 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 931281014893 CheW-like domain; Region: CheW; pfam01584 931281014894 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 931281014895 putative binding surface; other site 931281014896 active site 931281014897 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 931281014898 putative binding surface; other site 931281014899 active site 931281014900 Hpt domain; Region: Hpt; pfam01627 931281014901 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 931281014902 putative binding surface; other site 931281014903 active site 931281014904 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 931281014905 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 931281014906 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 931281014907 ATP binding site [chemical binding]; other site 931281014908 Mg2+ binding site [ion binding]; other site 931281014909 G-X-G motif; other site 931281014910 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 931281014911 Response regulator receiver domain; Region: Response_reg; pfam00072 931281014912 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281014913 active site 931281014914 phosphorylation site [posttranslational modification] 931281014915 intermolecular recognition site; other site 931281014916 dimerization interface [polypeptide binding]; other site 931281014917 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 931281014918 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 931281014919 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 931281014920 dimer interface [polypeptide binding]; other site 931281014921 putative CheW interface [polypeptide binding]; other site 931281014922 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 931281014923 Response regulator receiver domain; Region: Response_reg; pfam00072 931281014924 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281014925 active site 931281014926 phosphorylation site [posttranslational modification] 931281014927 intermolecular recognition site; other site 931281014928 dimerization interface [polypeptide binding]; other site 931281014929 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 931281014930 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281014931 active site 931281014932 phosphorylation site [posttranslational modification] 931281014933 intermolecular recognition site; other site 931281014934 dimerization interface [polypeptide binding]; other site 931281014935 glutathione synthetase; Provisional; Region: PRK05246 931281014936 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 931281014937 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 931281014938 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 931281014939 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 931281014940 hypothetical protein; Validated; Region: PRK00228 931281014941 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 931281014942 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 931281014943 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 931281014944 active site 931281014945 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 931281014946 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 931281014947 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 931281014948 dihydroorotase; Validated; Region: pyrC; PRK09357 931281014949 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 931281014950 active site 931281014951 ATP-dependent protease subunit HslV; Provisional; Region: PRK05456 931281014952 active site 931281014953 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 931281014954 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 931281014955 Walker A motif; other site 931281014956 ATP binding site [chemical binding]; other site 931281014957 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 931281014958 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 931281014959 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 931281014960 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 931281014961 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 931281014962 poly(3-hydroxyalkanoate) depolymerase; Region: PHA_depoly_arom; TIGR02240 931281014963 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 931281014964 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 931281014965 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 931281014966 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 931281014967 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 931281014968 Bacterial transcriptional repressor; Region: TetR; pfam13972 931281014969 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 931281014970 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 931281014971 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 931281014972 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 931281014973 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 931281014974 S-adenosylmethionine binding site [chemical binding]; other site 931281014975 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 931281014976 SCP-2 sterol transfer family; Region: SCP2; pfam02036 931281014977 ABC1 family; Region: ABC1; cl17513 931281014978 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 931281014979 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 931281014980 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 931281014981 metal binding site [ion binding]; metal-binding site 931281014982 twin arginine translocase protein A; Provisional; Region: tatA; PRK00442 931281014983 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 931281014984 sec-independent translocase; Provisional; Region: tatB; PRK00404 931281014985 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 931281014986 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 931281014987 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 931281014988 RNA methyltransferase, RsmE family; Region: TIGR00046 931281014989 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 931281014990 dimerization interface [polypeptide binding]; other site 931281014991 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 931281014992 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 931281014993 dimer interface [polypeptide binding]; other site 931281014994 putative CheW interface [polypeptide binding]; other site 931281014995 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 931281014996 dimerization interface [polypeptide binding]; other site 931281014997 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 931281014998 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 931281014999 dimer interface [polypeptide binding]; other site 931281015000 putative CheW interface [polypeptide binding]; other site 931281015001 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 931281015002 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 931281015003 Walker A/P-loop; other site 931281015004 ATP binding site [chemical binding]; other site 931281015005 Q-loop/lid; other site 931281015006 ABC transporter signature motif; other site 931281015007 Walker B; other site 931281015008 D-loop; other site 931281015009 H-loop/switch region; other site 931281015010 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 931281015011 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 931281015012 dimer interface [polypeptide binding]; other site 931281015013 conserved gate region; other site 931281015014 putative PBP binding loops; other site 931281015015 ABC-ATPase subunit interface; other site 931281015016 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 931281015017 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281015018 substrate binding pocket [chemical binding]; other site 931281015019 membrane-bound complex binding site; other site 931281015020 hinge residues; other site 931281015021 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 931281015022 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 931281015023 Ligand binding site; other site 931281015024 DXD motif; other site 931281015025 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 931281015026 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 931281015027 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 931281015028 putative active site [active] 931281015029 dimerization interface [polypeptide binding]; other site 931281015030 putative tRNAtyr binding site [nucleotide binding]; other site 931281015031 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 931281015032 TAP-like protein; Region: Abhydrolase_4; pfam08386 931281015033 N-formylglutamate amidohydrolase; Region: hutG_amidohyd; TIGR02017 931281015034 imidazolonepropionase; Validated; Region: PRK09356 931281015035 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 931281015036 active site 931281015037 putative proline-specific permease; Provisional; Region: proY; PRK10580 931281015038 Spore germination protein; Region: Spore_permease; cl17796 931281015039 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 931281015040 active sites [active] 931281015041 tetramer interface [polypeptide binding]; other site 931281015042 urocanate hydratase; Provisional; Region: PRK05414 931281015043 HutD; Region: HutD; pfam05962 931281015044 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 931281015045 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281015046 DNA-binding site [nucleotide binding]; DNA binding site 931281015047 UTRA domain; Region: UTRA; pfam07702 931281015048 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 931281015049 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 931281015050 active site 931281015051 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 931281015052 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 931281015053 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 931281015054 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 931281015055 fructose-1,6-bisphosphatase family protein; Region: PLN02628 931281015056 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 931281015057 AMP binding site [chemical binding]; other site 931281015058 metal binding site [ion binding]; metal-binding site 931281015059 active site 931281015060 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 931281015061 homodimer interface [polypeptide binding]; other site 931281015062 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 931281015063 active site pocket [active] 931281015064 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 931281015065 PhoPQ-activated pathogenicity-related protein; Region: PhoPQ_related; pfam10142 931281015066 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 931281015067 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 931281015068 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 931281015069 G1 box; other site 931281015070 putative GEF interaction site [polypeptide binding]; other site 931281015071 GTP/Mg2+ binding site [chemical binding]; other site 931281015072 Switch I region; other site 931281015073 G2 box; other site 931281015074 G3 box; other site 931281015075 Switch II region; other site 931281015076 G4 box; other site 931281015077 G5 box; other site 931281015078 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 931281015079 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 931281015080 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 931281015081 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 931281015082 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 931281015083 Ligand Binding Site [chemical binding]; other site 931281015084 thiazole biosynthesis domain; Region: ThiI_C_thiazole; TIGR04271 931281015085 glutamine synthetase; Provisional; Region: glnA; PRK09469 931281015086 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 931281015087 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 931281015088 chorismate mutase; Provisional; Region: PRK09269 931281015089 Chorismate mutase type II; Region: CM_2; cl00693 931281015090 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 931281015091 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 931281015092 dimer interface [polypeptide binding]; other site 931281015093 phosphorylation site [posttranslational modification] 931281015094 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 931281015095 ATP binding site [chemical binding]; other site 931281015096 Mg2+ binding site [ion binding]; other site 931281015097 G-X-G motif; other site 931281015098 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 931281015099 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281015100 active site 931281015101 phosphorylation site [posttranslational modification] 931281015102 intermolecular recognition site; other site 931281015103 dimerization interface [polypeptide binding]; other site 931281015104 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 931281015105 Walker A motif; other site 931281015106 ATP binding site [chemical binding]; other site 931281015107 Walker B motif; other site 931281015108 arginine finger; other site 931281015109 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 931281015110 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 931281015111 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 931281015112 SecA binding site; other site 931281015113 Preprotein binding site; other site 931281015114 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 931281015115 GSH binding site [chemical binding]; other site 931281015116 catalytic residues [active] 931281015117 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 931281015118 active site residue [active] 931281015119 phosphoglyceromutase; Provisional; Region: PRK05434 931281015120 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 931281015121 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 931281015122 Peptidase family M23; Region: Peptidase_M23; pfam01551 931281015123 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 931281015124 C-terminal peptidase (prc); Region: prc; TIGR00225 931281015125 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 931281015126 protein binding site [polypeptide binding]; other site 931281015127 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 931281015128 Catalytic dyad [active] 931281015129 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 931281015130 NodB motif; other site 931281015131 putative active site [active] 931281015132 putative catalytic site [active] 931281015133 Zn binding site [ion binding]; other site 931281015134 HOOK protein; Region: HOOK; pfam05622 931281015135 BCCT family transporter; Region: BCCT; cl00569 931281015136 transcriptional regulator BetI; Validated; Region: PRK00767 931281015137 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 931281015138 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 931281015139 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 931281015140 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 931281015141 NAD(P) binding site [chemical binding]; other site 931281015142 catalytic residues [active] 931281015143 choline dehydrogenase; Validated; Region: PRK02106 931281015144 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 931281015145 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 931281015146 potassium/proton antiporter; Reviewed; Region: PRK05326 931281015147 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 931281015148 TrkA-C domain; Region: TrkA_C; pfam02080 931281015149 Transporter associated domain; Region: CorC_HlyC; smart01091 931281015150 hypothetical protein; Provisional; Region: PRK11281 931281015151 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 931281015152 Mechanosensitive ion channel; Region: MS_channel; pfam00924 931281015153 Uncharacterized conserved protein [Function unknown]; Region: COG0397 931281015154 hypothetical protein; Validated; Region: PRK00029 931281015155 thioredoxin 2; Provisional; Region: PRK10996 931281015156 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 931281015157 catalytic residues [active] 931281015158 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 931281015159 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 931281015160 P-loop; other site 931281015161 Magnesium ion binding site [ion binding]; other site 931281015162 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 931281015163 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281015164 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281015165 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 931281015166 dimerization interface [polypeptide binding]; other site 931281015167 substrate binding pocket [chemical binding]; other site 931281015168 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 931281015169 Major Facilitator Superfamily; Region: MFS_1; pfam07690 931281015170 putative substrate translocation pore; other site 931281015171 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 931281015172 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 931281015173 substrate binding site [chemical binding]; other site 931281015174 active site 931281015175 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 931281015176 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 931281015177 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 931281015178 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 931281015179 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 931281015180 active site 931281015181 dimer interface [polypeptide binding]; other site 931281015182 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 931281015183 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 931281015184 active site 931281015185 FMN binding site [chemical binding]; other site 931281015186 substrate binding site [chemical binding]; other site 931281015187 3Fe-4S cluster binding site [ion binding]; other site 931281015188 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 931281015189 domain interface; other site 931281015190 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 931281015191 Sporulation related domain; Region: SPOR; pfam05036 931281015192 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 931281015193 active site 931281015194 dimer interface [polypeptide binding]; other site 931281015195 metal binding site [ion binding]; metal-binding site 931281015196 shikimate kinase; Reviewed; Region: aroK; PRK00131 931281015197 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 931281015198 ADP binding site [chemical binding]; other site 931281015199 magnesium binding site [ion binding]; other site 931281015200 putative shikimate binding site; other site 931281015201 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 931281015202 Secretin and TonB N terminus short domain; Region: STN; smart00965 931281015203 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 931281015204 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 931281015205 Pilus assembly protein, PilO; Region: PilO; cl01234 931281015206 Pilus assembly protein, PilP; Region: PilP; pfam04351 931281015207 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 931281015208 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 931281015209 Competence protein A; Region: Competence_A; pfam11104 931281015210 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 931281015211 Transglycosylase; Region: Transgly; pfam00912 931281015212 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 931281015213 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 931281015214 Malic enzyme, N-terminal domain; Region: malic; pfam00390 931281015215 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 931281015216 putative NAD(P) binding site [chemical binding]; other site 931281015217 Staphylococcal nuclease homologues; Region: SNc; smart00318 931281015218 Catalytic site; other site 931281015219 Staphylococcal nuclease homologue; Region: SNase; pfam00565 931281015220 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 931281015221 primosome assembly protein PriA; Validated; Region: PRK05580 931281015222 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 931281015223 ATP binding site [chemical binding]; other site 931281015224 putative Mg++ binding site [ion binding]; other site 931281015225 helicase superfamily c-terminal domain; Region: HELICc; smart00490 931281015226 ATP-binding site [chemical binding]; other site 931281015227 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 931281015228 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 931281015229 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 931281015230 active site 931281015231 HIGH motif; other site 931281015232 KMSK motif region; other site 931281015233 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 931281015234 tRNA binding surface [nucleotide binding]; other site 931281015235 anticodon binding site; other site 931281015236 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 931281015237 Sporulation related domain; Region: SPOR; pfam05036 931281015238 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 931281015239 TM2 domain; Region: TM2; cl00984 931281015240 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 931281015241 NlpC/P60 family; Region: NLPC_P60; pfam00877 931281015242 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 931281015243 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 931281015244 Walker A motif; other site 931281015245 ATP binding site [chemical binding]; other site 931281015246 Walker B motif; other site 931281015247 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 931281015248 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 931281015249 catalytic residue [active] 931281015250 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 931281015251 pyrroline-5-carboxylate reductase; Region: PLN02688 931281015252 YGGT family; Region: YGGT; pfam02325 931281015253 YGGT family; Region: YGGT; pfam02325 931281015254 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 931281015255 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 931281015256 hypothetical protein; Provisional; Region: PRK08317 931281015257 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 931281015258 S-adenosylmethionine binding site [chemical binding]; other site 931281015259 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 931281015260 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 931281015261 active site 931281015262 dimerization interface [polypeptide binding]; other site 931281015263 HemN family oxidoreductase; Provisional; Region: PRK05660 931281015264 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 931281015265 FeS/SAM binding site; other site 931281015266 HemN C-terminal domain; Region: HemN_C; pfam06969 931281015267 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 931281015268 Methyltransferase domain; Region: Methyltransf_31; pfam13847 931281015269 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 931281015270 S-adenosylmethionine binding site [chemical binding]; other site 931281015271 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 931281015272 ThiS interaction site; other site 931281015273 putative active site [active] 931281015274 tetramer interface [polypeptide binding]; other site 931281015275 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 931281015276 thiS-thiF/thiG interaction site; other site 931281015277 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 931281015278 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 931281015279 Transglycosylase; Region: Transgly; cl17702 931281015280 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 931281015281 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 931281015282 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 931281015283 DNA binding residues [nucleotide binding] 931281015284 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 931281015285 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 931281015286 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 931281015287 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281015288 Walker A/P-loop; other site 931281015289 ATP binding site [chemical binding]; other site 931281015290 Q-loop/lid; other site 931281015291 ABC transporter signature motif; other site 931281015292 Walker B; other site 931281015293 D-loop; other site 931281015294 H-loop/switch region; other site 931281015295 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 931281015296 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 931281015297 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 931281015298 P loop; other site 931281015299 GTP binding site [chemical binding]; other site 931281015300 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 931281015301 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 931281015302 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 931281015303 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 931281015304 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 931281015305 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 931281015306 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 931281015307 S-adenosylmethionine binding site [chemical binding]; other site 931281015308 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 931281015309 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 931281015310 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 931281015311 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 931281015312 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 931281015313 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 931281015314 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 931281015315 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 931281015316 active site residue [active] 931281015317 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 931281015318 active site residue [active] 931281015319 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 931281015320 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 931281015321 Bacterial transcriptional repressor; Region: TetR; pfam13972 931281015322 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 931281015323 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 931281015324 NAD(P) binding site [chemical binding]; other site 931281015325 catalytic residues [active] 931281015326 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 931281015327 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 931281015328 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 931281015329 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 931281015330 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 931281015331 active site 931281015332 (T/H)XGH motif; other site 931281015333 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 931281015334 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 931281015335 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 931281015336 DNA binding site [nucleotide binding] 931281015337 catalytic residue [active] 931281015338 H2TH interface [polypeptide binding]; other site 931281015339 putative catalytic residues [active] 931281015340 turnover-facilitating residue; other site 931281015341 intercalation triad [nucleotide binding]; other site 931281015342 8OG recognition residue [nucleotide binding]; other site 931281015343 putative reading head residues; other site 931281015344 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 931281015345 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 931281015346 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 931281015347 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 931281015348 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 931281015349 putative RNA binding site [nucleotide binding]; other site 931281015350 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 931281015351 S-adenosylmethionine binding site [chemical binding]; other site 931281015352 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 931281015353 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 931281015354 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 931281015355 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 931281015356 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 931281015357 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 931281015358 folate binding site [chemical binding]; other site 931281015359 NADP+ binding site [chemical binding]; other site 931281015360 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 931281015361 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 931281015362 G1 box; other site 931281015363 GTP/Mg2+ binding site [chemical binding]; other site 931281015364 G2 box; other site 931281015365 Switch I region; other site 931281015366 G3 box; other site 931281015367 Switch II region; other site 931281015368 G4 box; other site 931281015369 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 931281015370 G5 box; other site 931281015371 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 931281015372 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 931281015373 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 931281015374 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 931281015375 dimer interface [polypeptide binding]; other site 931281015376 conserved gate region; other site 931281015377 putative PBP binding loops; other site 931281015378 ABC-ATPase subunit interface; other site 931281015379 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 931281015380 dimer interface [polypeptide binding]; other site 931281015381 conserved gate region; other site 931281015382 putative PBP binding loops; other site 931281015383 ABC-ATPase subunit interface; other site 931281015384 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 931281015385 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281015386 Walker A/P-loop; other site 931281015387 ATP binding site [chemical binding]; other site 931281015388 Q-loop/lid; other site 931281015389 ABC transporter signature motif; other site 931281015390 Walker B; other site 931281015391 D-loop; other site 931281015392 H-loop/switch region; other site 931281015393 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 931281015394 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281015395 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 931281015396 dimerization interface [polypeptide binding]; other site 931281015397 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 931281015398 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 931281015399 Soluble P-type ATPase [General function prediction only]; Region: COG4087 931281015400 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 931281015401 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 931281015402 DNA binding residues [nucleotide binding] 931281015403 dimer interface [polypeptide binding]; other site 931281015404 putative metal binding site [ion binding]; other site 931281015405 thymidylate synthase; Provisional; Region: thyA; PRK13821 931281015406 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 931281015407 dimerization interface [polypeptide binding]; other site 931281015408 active site 931281015409 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 931281015410 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 931281015411 NRDE protein; Region: NRDE; cl01315 931281015412 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 931281015413 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 931281015414 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 931281015415 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 931281015416 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 931281015417 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 931281015418 putative active site [active] 931281015419 Ap4A binding site [chemical binding]; other site 931281015420 nudix motif; other site 931281015421 putative metal binding site [ion binding]; other site 931281015422 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 931281015423 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 931281015424 motif II; other site 931281015425 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 931281015426 threonine dehydratase; Reviewed; Region: PRK09224 931281015427 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 931281015428 tetramer interface [polypeptide binding]; other site 931281015429 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281015430 catalytic residue [active] 931281015431 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 931281015432 putative Ile/Val binding site [chemical binding]; other site 931281015433 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 931281015434 putative Ile/Val binding site [chemical binding]; other site 931281015435 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 931281015436 tetramer (dimer of dimers) interface [polypeptide binding]; other site 931281015437 active site 931281015438 dimer interface [polypeptide binding]; other site 931281015439 SdiA-regulated; Region: SdiA-regulated; pfam06977 931281015440 SdiA-regulated; Region: SdiA-regulated; cd09971 931281015441 putative active site [active] 931281015442 SdiA-regulated; Region: SdiA-regulated; pfam06977 931281015443 SdiA-regulated; Region: SdiA-regulated; cd09971 931281015444 putative active site [active] 931281015445 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 931281015446 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 931281015447 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 931281015448 FAD binding domain; Region: FAD_binding_4; pfam01565 931281015449 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 931281015450 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 931281015451 ligand binding site [chemical binding]; other site 931281015452 NAD binding site [chemical binding]; other site 931281015453 tetramer interface [polypeptide binding]; other site 931281015454 catalytic site [active] 931281015455 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 931281015456 L-serine binding site [chemical binding]; other site 931281015457 ACT domain interface; other site 931281015458 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 931281015459 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 931281015460 substrate binding pocket [chemical binding]; other site 931281015461 Uncharacterized conserved protein [Function unknown]; Region: COG1683 931281015462 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 931281015463 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 931281015464 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 931281015465 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 931281015466 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 931281015467 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 931281015468 S-type Pyocin; Region: Pyocin_S; pfam06958 931281015469 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 931281015470 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 931281015471 active site 931281015472 substrate binding site [chemical binding]; other site 931281015473 trimer interface [polypeptide binding]; other site 931281015474 CoA binding site [chemical binding]; other site 931281015475 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 931281015476 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 931281015477 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 931281015478 active site 931281015479 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 931281015480 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 931281015481 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 931281015482 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 931281015483 Walker A motif; other site 931281015484 ATP binding site [chemical binding]; other site 931281015485 Walker B motif; other site 931281015486 arginine finger; other site 931281015487 Serine hydrolase; Region: Ser_hydrolase; pfam06821 931281015488 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 931281015489 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 931281015490 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 931281015491 Walker A/P-loop; other site 931281015492 ATP binding site [chemical binding]; other site 931281015493 Q-loop/lid; other site 931281015494 ABC transporter signature motif; other site 931281015495 Walker B; other site 931281015496 D-loop; other site 931281015497 H-loop/switch region; other site 931281015498 TOBE-like domain; Region: TOBE_3; pfam12857 931281015499 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 931281015500 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 931281015501 dimer interface [polypeptide binding]; other site 931281015502 conserved gate region; other site 931281015503 putative PBP binding loops; other site 931281015504 ABC-ATPase subunit interface; other site 931281015505 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 931281015506 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 931281015507 dimer interface [polypeptide binding]; other site 931281015508 conserved gate region; other site 931281015509 putative PBP binding loops; other site 931281015510 ABC-ATPase subunit interface; other site 931281015511 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 931281015512 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 931281015513 Uncharacterized small protein [Function unknown]; Region: COG5583 931281015514 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 931281015515 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 931281015516 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 931281015517 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 931281015518 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 931281015519 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 931281015520 HlyD family secretion protein; Region: HlyD_3; pfam13437 931281015521 Transposase IS200 like; Region: Y1_Tnp; pfam01797 931281015522 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 931281015523 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 931281015524 dimer interface [polypeptide binding]; other site 931281015525 conserved gate region; other site 931281015526 putative PBP binding loops; other site 931281015527 ABC-ATPase subunit interface; other site 931281015528 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 931281015529 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 931281015530 dimer interface [polypeptide binding]; other site 931281015531 conserved gate region; other site 931281015532 putative PBP binding loops; other site 931281015533 ABC-ATPase subunit interface; other site 931281015534 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 931281015535 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281015536 Walker A/P-loop; other site 931281015537 ATP binding site [chemical binding]; other site 931281015538 Q-loop/lid; other site 931281015539 ABC transporter signature motif; other site 931281015540 Walker B; other site 931281015541 D-loop; other site 931281015542 H-loop/switch region; other site 931281015543 TOBE domain; Region: TOBE_2; pfam08402 931281015544 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 931281015545 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 931281015546 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 931281015547 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 931281015548 putative aminotransferase; Validated; Region: PRK07480 931281015549 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 931281015550 inhibitor-cofactor binding pocket; inhibition site 931281015551 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281015552 catalytic residue [active] 931281015553 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 931281015554 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 931281015555 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 931281015556 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 931281015557 N-acetylglutamate synthase; Validated; Region: PRK05279 931281015558 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 931281015559 putative feedback inhibition sensing region; other site 931281015560 putative nucleotide binding site [chemical binding]; other site 931281015561 putative substrate binding site [chemical binding]; other site 931281015562 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 931281015563 Coenzyme A binding pocket [chemical binding]; other site 931281015564 acetylornithine deacetylase; Provisional; Region: PRK05111 931281015565 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 931281015566 metal binding site [ion binding]; metal-binding site 931281015567 putative dimer interface [polypeptide binding]; other site 931281015568 Uncharacterized conserved protein [Function unknown]; Region: COG3025 931281015569 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 931281015570 putative active site; other site 931281015571 putative metal binding residues [ion binding]; other site 931281015572 signature motif; other site 931281015573 putative triphosphate binding site [ion binding]; other site 931281015574 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 931281015575 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 931281015576 putative DNA binding site [nucleotide binding]; other site 931281015577 putative Zn2+ binding site [ion binding]; other site 931281015578 AsnC family; Region: AsnC_trans_reg; pfam01037 931281015579 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 931281015580 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 931281015581 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 931281015582 Walker A motif; other site 931281015583 ATP binding site [chemical binding]; other site 931281015584 Walker B motif; other site 931281015585 conserverd hypothetical protein; Region: TIGR02448 931281015586 glycine dehydrogenase; Provisional; Region: PRK12566 931281015587 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 931281015588 tetramer interface [polypeptide binding]; other site 931281015589 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281015590 catalytic residue [active] 931281015591 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 931281015592 tetramer interface [polypeptide binding]; other site 931281015593 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281015594 catalytic residue [active] 931281015595 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 931281015596 lipoyl attachment site [posttranslational modification]; other site 931281015597 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 931281015598 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 931281015599 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 931281015600 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 931281015601 dimer interface [polypeptide binding]; other site 931281015602 conserved gate region; other site 931281015603 putative PBP binding loops; other site 931281015604 ABC-ATPase subunit interface; other site 931281015605 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 931281015606 dimer interface [polypeptide binding]; other site 931281015607 conserved gate region; other site 931281015608 putative PBP binding loops; other site 931281015609 ABC-ATPase subunit interface; other site 931281015610 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 931281015611 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 931281015612 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 931281015613 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK05714 931281015614 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 931281015615 active site 2 [active] 931281015616 active site 1 [active] 931281015617 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 931281015618 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 931281015619 proline aminopeptidase P II; Provisional; Region: PRK10879 931281015620 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 931281015621 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 931281015622 active site 931281015623 hypothetical protein; Reviewed; Region: PRK02166 931281015624 TIGR02449 family protein; Region: TIGR02449 931281015625 Cell division protein ZapA; Region: ZapA; pfam05164 931281015626 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 931281015627 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 931281015628 EVE domain; Region: EVE; cl00728 931281015629 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 931281015630 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 931281015631 HlyD family secretion protein; Region: HlyD_3; pfam13437 931281015632 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 931281015633 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 931281015634 Walker A/P-loop; other site 931281015635 ATP binding site [chemical binding]; other site 931281015636 Q-loop/lid; other site 931281015637 ABC transporter signature motif; other site 931281015638 Walker B; other site 931281015639 D-loop; other site 931281015640 H-loop/switch region; other site 931281015641 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 931281015642 Walker A/P-loop; other site 931281015643 ATP binding site [chemical binding]; other site 931281015644 Q-loop/lid; other site 931281015645 ABC transporter signature motif; other site 931281015646 Walker B; other site 931281015647 D-loop; other site 931281015648 H-loop/switch region; other site 931281015649 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 931281015650 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 931281015651 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 931281015652 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 931281015653 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 931281015654 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 931281015655 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 931281015656 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 931281015657 NAD(P) binding site [chemical binding]; other site 931281015658 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 931281015659 putative active site pocket [active] 931281015660 dimerization interface [polypeptide binding]; other site 931281015661 putative catalytic residue [active] 931281015662 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 931281015663 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 931281015664 catalytic loop [active] 931281015665 iron binding site [ion binding]; other site 931281015666 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 931281015667 FAD binding pocket [chemical binding]; other site 931281015668 FAD binding motif [chemical binding]; other site 931281015669 phosphate binding motif [ion binding]; other site 931281015670 beta-alpha-beta structure motif; other site 931281015671 NAD binding pocket [chemical binding]; other site 931281015672 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 931281015673 transcription termination factor Rho; Provisional; Region: rho; PRK09376 931281015674 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 931281015675 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 931281015676 RNA binding site [nucleotide binding]; other site 931281015677 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 931281015678 multimer interface [polypeptide binding]; other site 931281015679 Walker A motif; other site 931281015680 ATP binding site [chemical binding]; other site 931281015681 Walker B motif; other site 931281015682 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 931281015683 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 931281015684 catalytic residues [active] 931281015685 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 931281015686 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 931281015687 polyphosphate kinase; Provisional; Region: PRK05443 931281015688 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 931281015689 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 931281015690 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 931281015691 putative active site [active] 931281015692 catalytic site [active] 931281015693 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 931281015694 putative domain interface [polypeptide binding]; other site 931281015695 putative active site [active] 931281015696 catalytic site [active] 931281015697 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 931281015698 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 931281015699 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 931281015700 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 931281015701 conserved cys residue [active] 931281015702 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1671 931281015703 adenylate cyclase; Provisional; Region: cyaA; PRK09450 931281015704 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 931281015705 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 931281015706 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 931281015707 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 931281015708 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 931281015709 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 931281015710 putative iron binding site [ion binding]; other site 931281015711 diaminopimelate decarboxylase; Region: lysA; TIGR01048 931281015712 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 931281015713 active site 931281015714 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 931281015715 substrate binding site [chemical binding]; other site 931281015716 catalytic residues [active] 931281015717 dimer interface [polypeptide binding]; other site 931281015718 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 931281015719 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 931281015720 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 931281015721 Protein of unknown function, DUF484; Region: DUF484; cl17449 931281015722 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 931281015723 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 931281015724 active site 931281015725 DNA binding site [nucleotide binding] 931281015726 Int/Topo IB signature motif; other site 931281015727 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 931281015728 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 931281015729 motif II; other site 931281015730 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 931281015731 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 931281015732 Nitrogen regulatory protein P-II; Region: P-II; smart00938 931281015733 Membrane fusogenic activity; Region: BMFP; pfam04380 931281015734 Domain of unknown function (DUF4034); Region: DUF4034; pfam13226 931281015735 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 931281015736 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 931281015737 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 931281015738 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 931281015739 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281015740 active site 931281015741 phosphorylation site [posttranslational modification] 931281015742 intermolecular recognition site; other site 931281015743 dimerization interface [polypeptide binding]; other site 931281015744 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 931281015745 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 931281015746 DNA binding site [nucleotide binding] 931281015747 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 931281015748 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281015749 active site 931281015750 phosphorylation site [posttranslational modification] 931281015751 intermolecular recognition site; other site 931281015752 dimerization interface [polypeptide binding]; other site 931281015753 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 931281015754 DNA binding residues [nucleotide binding] 931281015755 dimerization interface [polypeptide binding]; other site 931281015756 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 931281015757 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 931281015758 substrate binding site [chemical binding]; other site 931281015759 activation loop (A-loop); other site 931281015760 AAA ATPase domain; Region: AAA_16; pfam13191 931281015761 Predicted ATPase [General function prediction only]; Region: COG3899 931281015762 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 931281015763 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 931281015764 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 931281015765 dimer interface [polypeptide binding]; other site 931281015766 phosphorylation site [posttranslational modification] 931281015767 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 931281015768 ATP binding site [chemical binding]; other site 931281015769 Mg2+ binding site [ion binding]; other site 931281015770 G-X-G motif; other site 931281015771 Isochorismatase family; Region: Isochorismatase; pfam00857 931281015772 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 931281015773 catalytic triad [active] 931281015774 dimer interface [polypeptide binding]; other site 931281015775 conserved cis-peptide bond; other site 931281015776 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 931281015777 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281015778 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281015779 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 931281015780 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 931281015781 conserved cys residue [active] 931281015782 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281015783 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 931281015784 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 931281015785 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 931281015786 TrkA-N domain; Region: TrkA_N; pfam02254 931281015787 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 931281015788 Isochorismatase family; Region: Isochorismatase; pfam00857 931281015789 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 931281015790 catalytic triad [active] 931281015791 dimer interface [polypeptide binding]; other site 931281015792 conserved cis-peptide bond; other site 931281015793 LysR family transcriptional regulator; Provisional; Region: PRK14997 931281015794 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281015795 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 931281015796 putative effector binding pocket; other site 931281015797 putative dimerization interface [polypeptide binding]; other site 931281015798 outer membrane porin, OprD family; Region: OprD; pfam03573 931281015799 Transmembrane secretion effector; Region: MFS_3; pfam05977 931281015800 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 931281015801 putative substrate translocation pore; other site 931281015802 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 931281015803 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 931281015804 active site 931281015805 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 931281015806 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 931281015807 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 931281015808 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 931281015809 Isochorismatase family; Region: Isochorismatase; pfam00857 931281015810 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 931281015811 catalytic triad [active] 931281015812 dimer interface [polypeptide binding]; other site 931281015813 conserved cis-peptide bond; other site 931281015814 Mechanosensitive ion channel; Region: MS_channel; pfam00924 931281015815 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 931281015816 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 931281015817 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 931281015818 ligand binding site [chemical binding]; other site 931281015819 flexible hinge region; other site 931281015820 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 931281015821 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 931281015822 aldehyde dehydrogenase family 7 member; Region: PLN02315 931281015823 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 931281015824 tetrameric interface [polypeptide binding]; other site 931281015825 NAD binding site [chemical binding]; other site 931281015826 catalytic residues [active] 931281015827 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281015828 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 931281015829 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 931281015830 dimerization interface [polypeptide binding]; other site 931281015831 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 931281015832 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 931281015833 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 931281015834 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281015835 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 931281015836 dimerization interface [polypeptide binding]; other site 931281015837 multidrug efflux protein NorA; Provisional; Region: PRK00187 931281015838 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 931281015839 cation binding site [ion binding]; other site 931281015840 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 931281015841 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 931281015842 metal binding site [ion binding]; metal-binding site 931281015843 active site 931281015844 I-site; other site 931281015845 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 931281015846 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 931281015847 Part of AAA domain; Region: AAA_19; pfam13245 931281015848 Family description; Region: UvrD_C_2; pfam13538 931281015849 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 931281015850 active site 931281015851 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 931281015852 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 931281015853 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 931281015854 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 931281015855 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 931281015856 non-specific DNA binding site [nucleotide binding]; other site 931281015857 salt bridge; other site 931281015858 sequence-specific DNA binding site [nucleotide binding]; other site 931281015859 Cupin domain; Region: Cupin_2; pfam07883 931281015860 alanine racemase; Reviewed; Region: dadX; PRK03646 931281015861 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 931281015862 active site 931281015863 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 931281015864 substrate binding site [chemical binding]; other site 931281015865 catalytic residues [active] 931281015866 dimer interface [polypeptide binding]; other site 931281015867 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 931281015868 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 931281015869 hydroxyglutarate oxidase; Provisional; Region: PRK11728 931281015870 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 931281015871 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 931281015872 putative DNA binding site [nucleotide binding]; other site 931281015873 putative Zn2+ binding site [ion binding]; other site 931281015874 AsnC family; Region: AsnC_trans_reg; pfam01037 931281015875 Flagellin N-methylase; Region: FliB; pfam03692 931281015876 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 931281015877 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 931281015878 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 931281015879 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 931281015880 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 931281015881 DNA-binding site [nucleotide binding]; DNA binding site 931281015882 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 931281015883 pyridoxal 5'-phosphate binding site [chemical binding]; other site 931281015884 homodimer interface [polypeptide binding]; other site 931281015885 catalytic residue [active] 931281015886 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 931281015887 PLD-like domain; Region: PLDc_2; pfam13091 931281015888 putative active site [active] 931281015889 catalytic site [active] 931281015890 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 931281015891 PLD-like domain; Region: PLDc_2; pfam13091 931281015892 putative active site [active] 931281015893 catalytic site [active] 931281015894 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 931281015895 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 931281015896 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 931281015897 NAD(P) binding site [chemical binding]; other site 931281015898 catalytic residues [active] 931281015899 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 931281015900 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 931281015901 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 931281015902 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 931281015903 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 931281015904 peptide binding site [polypeptide binding]; other site 931281015905 hypothetical protein; Reviewed; Region: PRK00024 931281015906 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 931281015907 MPN+ (JAMM) motif; other site 931281015908 Zinc-binding site [ion binding]; other site 931281015909 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 931281015910 Flavoprotein; Region: Flavoprotein; pfam02441 931281015911 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 931281015912 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 931281015913 trimer interface [polypeptide binding]; other site 931281015914 active site 931281015915 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 931281015916 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 931281015917 active site 931281015918 substrate binding site [chemical binding]; other site 931281015919 metal binding site [ion binding]; metal-binding site 931281015920 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 931281015921 feedback inhibition sensing region; other site 931281015922 homohexameric interface [polypeptide binding]; other site 931281015923 nucleotide binding site [chemical binding]; other site 931281015924 N-acetyl-L-glutamate binding site [chemical binding]; other site 931281015925 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 931281015926 active site 931281015927 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 931281015928 putative active site [active] 931281015929 putative catalytic site [active] 931281015930 putative DNA binding site [nucleotide binding]; other site 931281015931 putative phosphate binding site [ion binding]; other site 931281015932 metal binding site A [ion binding]; metal-binding site 931281015933 putative AP binding site [nucleotide binding]; other site 931281015934 putative metal binding site B [ion binding]; other site 931281015935 Tic20-like protein; Region: Tic20; pfam09685 931281015936 ribonuclease PH; Reviewed; Region: rph; PRK00173 931281015937 Ribonuclease PH; Region: RNase_PH_bact; cd11362 931281015938 hexamer interface [polypeptide binding]; other site 931281015939 active site 931281015940 hypothetical protein; Provisional; Region: PRK11820 931281015941 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 931281015942 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 931281015943 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 931281015944 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 931281015945 catalytic site [active] 931281015946 G-X2-G-X-G-K; other site 931281015947 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 931281015948 Peptidase C26; Region: Peptidase_C26; pfam07722 931281015949 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 931281015950 catalytic triad [active] 931281015951 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 931281015952 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 931281015953 Transcriptional regulator [Transcription]; Region: LysR; COG0583 931281015954 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281015955 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 931281015956 dimerization interface [polypeptide binding]; other site 931281015957 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 931281015958 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 931281015959 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 931281015960 Zn2+ binding site [ion binding]; other site 931281015961 Mg2+ binding site [ion binding]; other site 931281015962 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 931281015963 synthetase active site [active] 931281015964 NTP binding site [chemical binding]; other site 931281015965 metal binding site [ion binding]; metal-binding site 931281015966 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 931281015967 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 931281015968 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 931281015969 homotrimer interaction site [polypeptide binding]; other site 931281015970 putative active site [active] 931281015971 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 931281015972 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 931281015973 putative NAD(P) binding site [chemical binding]; other site 931281015974 tonB-system energizer ExbB; Region: exbB; TIGR02797 931281015975 biopolymer transport protein ExbD; Provisional; Region: PRK11267 931281015976 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 931281015977 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 931281015978 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 931281015979 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 931281015980 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 931281015981 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 931281015982 dimerization interface [polypeptide binding]; other site 931281015983 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 931281015984 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 931281015985 generic binding surface II; other site 931281015986 ssDNA binding site; other site 931281015987 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 931281015988 ATP binding site [chemical binding]; other site 931281015989 putative Mg++ binding site [ion binding]; other site 931281015990 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 931281015991 nucleotide binding region [chemical binding]; other site 931281015992 ATP-binding site [chemical binding]; other site 931281015993 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 931281015994 putative deacylase active site [active] 931281015995 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 931281015996 SCP-2 sterol transfer family; Region: SCP2; pfam02036 931281015997 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 931281015998 IHF dimer interface [polypeptide binding]; other site 931281015999 IHF - DNA interface [nucleotide binding]; other site 931281016000 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 931281016001 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 931281016002 Rubredoxin [Energy production and conversion]; Region: COG1773 931281016003 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 931281016004 iron binding site [ion binding]; other site 931281016005 Chorismate lyase; Region: Chor_lyase; cl01230 931281016006 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 931281016007 UbiA prenyltransferase family; Region: UbiA; pfam01040 931281016008 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 931281016009 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 931281016010 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 931281016011 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281016012 active site 931281016013 phosphorylation site [posttranslational modification] 931281016014 intermolecular recognition site; other site 931281016015 dimerization interface [polypeptide binding]; other site 931281016016 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 931281016017 DNA binding site [nucleotide binding] 931281016018 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 931281016019 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 931281016020 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 931281016021 putative active site [active] 931281016022 heme pocket [chemical binding]; other site 931281016023 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 931281016024 dimer interface [polypeptide binding]; other site 931281016025 phosphorylation site [posttranslational modification] 931281016026 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 931281016027 ATP binding site [chemical binding]; other site 931281016028 Mg2+ binding site [ion binding]; other site 931281016029 G-X-G motif; other site 931281016030 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 931281016031 Domain of unknown function DUF21; Region: DUF21; pfam01595 931281016032 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 931281016033 Transporter associated domain; Region: CorC_HlyC; smart01091 931281016034 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 931281016035 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 931281016036 Peptidase family M23; Region: Peptidase_M23; pfam01551 931281016037 Response regulator receiver domain; Region: Response_reg; pfam00072 931281016038 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 931281016039 active site 931281016040 phosphorylation site [posttranslational modification] 931281016041 intermolecular recognition site; other site 931281016042 dimerization interface [polypeptide binding]; other site 931281016043 transcriptional regulator PhoU; Provisional; Region: PRK11115 931281016044 PhoU domain; Region: PhoU; pfam01895 931281016045 PhoU domain; Region: PhoU; pfam01895 931281016046 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 931281016047 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 931281016048 Walker A/P-loop; other site 931281016049 ATP binding site [chemical binding]; other site 931281016050 Q-loop/lid; other site 931281016051 ABC transporter signature motif; other site 931281016052 Walker B; other site 931281016053 D-loop; other site 931281016054 H-loop/switch region; other site 931281016055 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 931281016056 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 931281016057 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 931281016058 dimer interface [polypeptide binding]; other site 931281016059 conserved gate region; other site 931281016060 putative PBP binding loops; other site 931281016061 ABC-ATPase subunit interface; other site 931281016062 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 931281016063 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 931281016064 dimer interface [polypeptide binding]; other site 931281016065 conserved gate region; other site 931281016066 putative PBP binding loops; other site 931281016067 ABC-ATPase subunit interface; other site 931281016068 phosphate binding protein; Region: ptsS_2; TIGR02136 931281016069 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 931281016070 metabolite-proton symporter; Region: 2A0106; TIGR00883 931281016071 putative substrate translocation pore; other site 931281016072 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 931281016073 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 931281016074 active site 931281016075 phosphate binding residues; other site 931281016076 catalytic residues [active]